Class Hierarchy

• qubx.simulation_protocol.Shape
  • qubx.simulation_protocol.Bits
  • qubx.simulation_protocol.CustomShape
  • qubx.simulation_protocol.File
  • qubx.simulation_protocol.Hold
  • qubx.simulation_protocol.Ramp
  • qubx.simulation_protocol.Sine
  • qubx.simulation_protocol.Step
• ctypes.Structure
• ctypes.Structure
• gtk.gtkgl.Widget
• object: The most base type
  • qubx.acquirefile.AcquireAnalogInChannelRecord
  • qubx.acquirefile.AcquireAperiodicChannelRecord
  • qubx.acquirefile.AcquireAperiodicEntry
  • qubx.acquirefile.AcquireBlockDescriptor
  • qubx.acquirefile.AcquireBlockTag
  • qubx.acquirefile.AcquireChannelDescriptor
  • qubx.acquirefile.AcquireFile
  • qubx.acquirefile.AcquireHeader
  • qubx.acquirefile.AcquirePrefix
  • qubx.acquirefile.AcquireSegmentDescriptor
  • qubx.acquirefile.AcquireSeriesDescriptor
  • qubx.acquirefile.AcquireSweepDescriptor
  • qubx.acquirefile.AcquireSweepPrefixAnalogChannel
  • qubx.acquirefile.AcquireSweepPrefixAperiodicChannel
  • qubx.util_types.Anon: An object whose fields are the constructor keyword arguments.
    • qubx.GTK.CheckListEntryItem
    • qubx_mac.rates.DataPrep: Represents data ready for computation.
    • qubx_macro_r.rates.DataPrep: Represents data ready for computation.
    • qubx_single.rates.DataPrep: Represents data ready for computation.
    • qubx.xmlt.Field: Field(name, default, accept=str, format=str): an attribute for <properties>.
    • qubx.hist.HistRec
    • qubx.util_types.JsonAnon
    • qubx_about_plug.qubx_plugin.ModelPrep: Represents a model ready for computation with QubX.Modeling.Utils.
    • qubx_mac.qubx_plugin.ModelPrep: Represents a model ready for computation with QubX.Modeling.Utils.
    • qubx_macro_r.qubx_plugin.ModelPrep: Represents a model ready for computation with QubX.Modeling.Utils.
    • qubx_testing.qubx_plugin.ModelPrep: Represents a model ready for computation with QubX.Modeling.Utils.
    • qubx_single.rates.ModelPrep: Represents a model ready for computation.
    • qubx.notebook.NbAutoRec: Info about one automatic notebook item:
    • qubx.notebook.NbChartSeries: Properties of one series in a chart item:
    • qubx.notebook.NbItem: The simplest type of notebook item; this class has the minimal properties and methods to implement the notebook protocol:
      • qubx.notebook.NbDynText: A simple notebook item with text that's recomputed by the get_msg function whenever it's needed.
      • qubx.notebook.NbItems: A bundle of related notebook items; e.g.
      • qubx.notebookGTK.NbPicture
      • qubx.notebook.NbTable: A notebook item with tabular data.
        • qubx.notebook.NbChart: Notebook item representing a 2D plot.
          • qubx.notebook.NbTrace: Notebook item representing sampled data from one or more signals.
        • qubx.notebook.NbStaticArray: A notebook item representing a specific 1d or 2d numpy.ndarray.
        • qubx.notebook.NbStaticTable: A notebook item representing a specific array.
        • qubx.notebookGTK.NbSubTablePicker
      • qubx.notebook.NbText: A simple notebook item with static text.
    • qubx.notebook.NbTargetRec: Info about one registered notebook target:
    • qubx.modeling_utils.Optimizer: Presents a consistent interface on one model/data-based optimization routine, e.g.
    • qubx.settings.PropertyInstance
    • qubx.script_seq.ScriptSeq
    • qubx.script_seq.ScriptSeqs
    • qubx.data_types.SourceChunk: Describes one contiguous slice of data from the data source.
      • qubx.data_types.SourceSeg: Describes one segment from the data source.
    • qubx.extract.SourceSegAdd
    • qubx.extract.SourceSegAvg
    • qubx.extract.SourceSegFunc
    • qubx.extract.SourceSegJoin
    • qubx.extract.SourceSegMinusFit
    • qubx.extract.SourceSegMinusNodes
    • qubx.extract.SourceSegResampled
    • qubx.extract.SourceSegSub
    • qubx.extract.SourceSegTime
    • qubx.data_types.StimulusRecord: Describes how to find and idealize the time course of a model variable.
    • qubx.table.TableRow: Represents the data in one row of a Table, with .field_name access, and a dict of fields.
    • qubx.table_panel.TableTab: Info about one tab in TablesFace.
    • qubx_single.rates.Workspace: Holds data, model, and results for one file.
  • qubx.cube.App: Sets up the main window (Cube) and calls gtk.main.
    • qubx.express.ExpressApp
    • qubx.fitness.FitnessApp
  • qubx.fit.BaseCurve: Defines the interface of a curve object; curves need not subclass, but they must behave like it.
    • qubx_single.dur_hist.AllExponentials: This class implements a method to find all significant exponential components of a duration histogram, published in
    • qubx_single.dur_hist.AllExponentials_Display
    • qubx.fit.Curve: Fittable curve from a parsed Python expression; either simple algebraic, or system of ODEs; see acceptODEs.
      • qubx.fit.HillCurveNorm
    • qubx.fit.DblDecExpoCurve
    • qubx.fit.DblGaussianCurve
    • qubx.fit.DblGaussianUnitCurve
    • qubx.fit.DecExpoCurve
    • qubx.fit.GaussianCurve
    • qubx.fit.GaussianUnitCurve
    • qubx.fit.HillCurve
    • qubx.fit.LinearCurve
    • qubx.fit.LogExpoCurve
    • qubx.fit.LogExpoCurve2
    • qubx.fit.LogExpoCurve3
    • qubx.fit.LogExpoCurve4
    • qubx.fit.LogExpoCurve5
    • qubx.fit.LorentzianCurve
    • qubx.fit.QuadGaussianCurve
    • qubx.fit.QuadGaussianUnitCurve
    • qubx.fit.QuintGaussianCurve
    • qubx.fit.QuintGaussianUnitCurve
    • qubx.fit.TriGaussianCurve
    • qubx.fit.TriGaussianUnitCurve
  • exceptions.BaseException: Common base class for all exceptions
    • exceptions.Exception: Common base class for all non-exit exceptions.
      • qubx.tifffile.TiffTag.Error
      • qubx.accept.FieldAcceptException
      • qubx.fit.OutOfBounds
      • qubx.remote_ctl.RemoteError: Contains the traceback from an exception on the remote side.
      • qubx.pyenv.ScriptRecursionError
      • qubx.fit.Stop
      • qubx.sock.Stop: Raised and caught internally to break out of a read when Socket.stop() is called
      • qubx.tree.Truncation
      • qubx.tifffile.TiffSequence._ParseError
  • qubx.fit.BaseFitter: Defines the interface of a fitter object; fitters need not subclass, but they must behave like it.
    • qubx.fit.LMFitter: Minimizes sum-squared-residual using lmmin from qubx.fast.
    • qubx.fit.SimplexFitter: Minimizes the sum-squared-residual using scipy.optimize.fmin.
    • qubx.fit.Simplex_LM_Fitter: Minimizes sum-squared-residual using SimplexFitter then LMFitter; using half the max_iter for each algorithm.
  • qubx.fast.baseline.BaselineNode
  • qubx.fast.baseline.BaselineRange
  • qubx.fast.baseline.BaselineSeg
  • qubx.acquirefile.Block
  • qubx.dataGTK.CacheTile
  • qubx_testing.calcserv.CalcMaster
  • qubx.fast.kmeans.Clusterer
  • qubx.fast.kalman.Constants: Holds the matrices which define the filter; can be shared among Filter instances.
  • qubx.fast.model.ConstrainedBase
    • qubx.fast.model.Constrained
  • qubx.fast.filter.DFII32
  • qubx.fast.filter.DFII64
  • qubx.tree.Data
  • qubx.tree_native.Data
  • qubx.tree.DataCol: A handler for the data in one column of a qubtree node.
  • qubx.tree_native.DataCol
  • qubx.tree.DataRow: A handler for the data in one row of a qubtree node.
  • qubx.tree_native.DataRow
  • qubx.dataGTK.DataSource: Provides sampled and idealized data to the user's specification.
  • qubx.util_types.DeathRattle: Prints to stdout when it is finally freed, presumably at the same time as its owner.
  • qubx.pyenv.DeferredAction: Calls a func(*args, **kw) after a short delay; if multiple expressions are received from one source within the delay time, only the final one is passed through; if the source changes, previous func is called immediately.
    • qubx.pyenv.DeferredScriptable: Passes through expressions to qubx.pyenv.env.OnScriptable after a short delay; if multiple expressions are received from one source within the delay time, only the final one is passed through.
      • qubx.pyenv.DeferredScriptableScroll
  • qubx.pyenv.DeferredSideEffects: Context manager, for use in a script, which disables the trace function -- faster execution because it doesn't wait for side-effects to complete after each line -- but dangerous if the side effects need to happen before the script continues.
  • qubx.tree.Dirtee
  • qubx.fast.data.DoseResponse_Equil: Very important to feed data chunks in reverse order.
  • qubx.fast.data.DoseResponse_Peak: Feed whole segments please.
  • qubx.fast.clickmap.DotMap
  • qubx.maths.DrivenODESystem
  • qubx.util_types.Event: Usage:
  • qubx.pyenvGTK.ExploreListSlice
  • qubx.fast.kalman.Filter
  • qubx.data_fit.FitDataSource: Provides sampled and data to the CurveFit specification.
  • qubx.fit_robots.FitSession: Background thread to operate qubx.fit.
  • qubx.maths.FracPos: Keeps a pointer in an array of data, for random but generally small-offset access by ODE solver.
  • qubx.accept.FuncAcceptor: FuncAcceptor instance is callable as fa(x, custom1, custom2, ...).
  • gobject.GInterface: Interface GInterface
    • gtk.Activatable
      • gtk.Button: Object GtkButton
        • qubx.pyenvGTK.HelpTestButton: A gtk.Button linked to a qubx.GTK.NumEntry, labeled '?', which brings up an appropriate HelpTestDialog.
        • qubx.GTK.TriangleButton: gtk.Button decorated with a Triangle.
          • qubx.GTK.TriangleExpander
    • gtk.Buildable
      • gtk.Widget: Object GtkWidget
        • gtk.Container: Object GtkContainer
          • gtk.Bin: Object GtkBin
            • gtk.Button: Object GtkButton
              • qubx.pyenvGTK.HelpTestButton: A gtk.Button linked to a qubx.GTK.NumEntry, labeled '?', which brings up an appropriate HelpTestDialog.
              • qubx.GTK.TriangleButton: gtk.Button decorated with a Triangle.
                • qubx.GTK.TriangleExpander
            • gtk.EventBox: Object GtkEventBox
              • qubx.GTK.DynamicComboBox: A menu which is re-built each time it drops down.
                • qubx.optimizeGTK.OptMenu
              • qubx.settingsGTK.PresetsMenu: Combo box for managing a category of presets/settings.
              • qubx.GTK.StaticComboList: A menu whose choices never change.
              • qubx.GTK.SuggestiveComboBox: Like NumEntry, with drop-down list of suggestions.
            • gtk.Frame: Object GtkFrame
              • qubx.pyenvGTK.PythonOut: A widget showing sys.stdout.
              • qubx.GTK.V2Scale: Widget with two logarithmic sliders: coarse and fine.
            • gtk.ScrolledWindow: Object GtkScrolledWindow
              • qubx.pyenvGTK.AltMapTable
            • gtk.Window: Object GtkWindow
              • qubx.cube.Cube: Main window of QUB Express, Fitness.
              • gtk.Dialog: Object GtkDialog
                • qubx.GTK.AskOnceDialog: Shows a message, some buttons, and a checkbox "[x] don't show this message again."
                • qubx.GTK.BusyDialog: Modal dialog with progress bar and stop button; supervises a long-running computation.
                • qubx.chop.ChopDialog
                • qubx.GTK.CopyDialog: A customizable copy image dialog
                  • qubx_single.dur_hist.DurHistCopyDialog
                  • qubx.modelGTK.QubModelCopyDialog: Modal window with settings for 'copy model image'.
                  • qubx.spectrum.SpectrumCopyDialog
                • qubx.select_charts.CriteriaDialog
                • qubx.simulate.DoseResp_Ladder_Wizard
                • qubx.dataGTK.DoseResponse_Properties
                • qubx.pyenvGTK.ExploreDialog: Modal window to explore python namespace.
                • qubx.pyenvGTK.HelpTestDialog: Dialog to help write and debug one-liners.
                • qubx.GTK.InputDialog: Prompts the user to write or edit a string.
                • qubx.modelGTK.ModelMerge_Dialog
                • qubx.modelGTK.ModelNbPicturePrefs
                • qubx.treeGTK.NodeDialog: A dialog box to hold the NodeView for editing a single qubx.tree.Node.
                • qubx.GTK.NumEntriesDialog: Prompts the user to write or edit some values.
                • qubx.GTK.NumEntryDialog: Prompts the user to write or edit a string.
                • qubx.simulate.PairedPulse_Wizard
                • qubx.settingsGTK.PresetsDialog: Manage Presets dialog
                • qubx.settingsGTK.PropertiedDialog: Edits a settings category, with OK, Cancel, Presets.
                • qubx.pyenvGTK.PythonEnvironmentDialog: Dialog for editing sys.path extensions and the startup script (see qubx.pyenv.PythonEnvironment).
                • qubx.stimulus.Shaper_ODE_Wizard
                • qubx.simulate.SimNoiseDialog
                • qubx.toolspace.TS_ColorsDialog: Modeless window for changing the (r,g,b,a) values in appearance.colors.
                • qubx.treeGTK.TreeDialog: Dialog for modal editing of a qubx.tree.Node and its children.
              • qubx.modelGTK.IeqFvAboutBox
              • qubx.dataGTK.KeyMessageBox
              • qubx.pyenvGTK.PythonScriptWindow: Window for editing and running user scripts.
              • qubx.fit_space.StrategyDialog
              • qubx.treeGTK.TreeWindow: A top-level gtk.Window with a TreeView for editing a qubx.tree.Node and its children.
          • gtk.Box: Object GtkBox
            • gtk.HBox: Object GtkHBox
              • qubx.idealize.BaumWelchIdealizer
              • qubx.stimulus.ByDeltaARIdealizer
              • qubx.stimulus.ByDeltaIdealizer
              • qubx.select_charts.CriteriaEntry
              • qubx.GTK.DateBox: Widget for entering/editing legitimate datetime.datetime values.
              • qubx_idl_mdl.idealizer.MDLIdealizer
              • qubx.notebookGTK.NbControls_HTML
              • qubx.pyenvGTK.PythonPrompt: A widget which lets the user execute a line of python.
              • qubx.idealize.SKMIdealizer
              • qubx.stimulus.Shaper_ODE_Wizard_Param
              • qubx.tableGTK.TableViewCtrls: A row of controls for the top of some TableViews.
              • qubx.GTK.ZoomBar: Widget combining H scrollbar with zoom in/out buttons.
            • gtk.VBox: Object GtkVBox
              • qubx.pyenvGTK.ExploreObjView
              • qubx.faces.Face: Base container class.
                • qubx_about_plug.qubx_plugin.AboutPlugin
                  • qubx_about_plug.qubx_plugin.AboutPluginExample
                  • qubx_about_plug.qubx_about_testing.TestingFace
                • qubx_mac.qubx_plugin.AboutPlugin
                  • qubx_mac.qubx_plugin.AboutPluginExample
                • qubx_macro_r.qubx_plugin.AboutPlugin
                  • qubx_macro_r.qubx_plugin.AboutPluginExample
                • qubx_testing.qubx_plugin.AboutPlugin
                  • qubx_testing.qubx_plugin.AboutPluginExample
                • qubx.util_panels.AltKeysFace: Panel with alt-combo -> script mapping.
                • qubx_testing.calcserv.CalcServ
                • qubx.modeling_utils.ChainFace
                • qubx.modeling_utils.ClassifyFace
                • qubx.data_panel.DataSourceFace: Panel with source signal and file/screen; monitors QubX.DataSource and handles presets.
                • qubx.extract.ExtractFace
                • qubx.faces.FilesFace: Base class for a widget that manages multiple open files; e.g Data, Model.
                  • qubx.data_panel.DataFace: Panel displaying one of possibly several open data files.
                  • qubx.models_panel.ModelsFace: Panel showing one of possibly many open model files.
                • qubx.hill.HillFace: Measures, displays, updates the dose-response curve for frontmost data, and fits to the Hill equation.
                • qubx.hist.HistFace: Base class for panel showing one or more pages of histograms which are updated on a background thread (robot).
                  • qubx.hist.DataHistFace: Base class for a histogram panel which updates when the sampled data source changes.
                    • qubx.hist.AmpHistFace: Panel showing the all-points amplitude histogram of one signal.
                    • qubx.spectrum.SpectrumFace
                  • qubx_single.dur_hist.DurHistFace
                • qubx.idealize.IdlFace: Hosts idealization methods, many from qubx_single_molecule plugin.
                • qubx.ideal_tools.IdlToolsFace
                • qubx.kalman.KalmanFace
                • qubx.list_average.ListAverageFace: Panel showing live average of front List.
                • qubx.list_figure.ListFigureFace: Panel which generates high-quality figures from the selection list.
                • qubx.modeling_utils.ModelSearchFace
                • qubx.notebookGTK.NbEntryFace
                • qubx.notebookGTK.NotebookFace
                • qubx.stimulus.OneStimulusFace
                • qubx.optimizeGTK.OptOptions
                • qubx.optimizeGTK.OptOptionsFace
                • qubx.modeling_utils.PerturbFace
                • qubx.util_panels.PluginsFace: Face to manage qubx.pyenv.Plugins, the qubx.pyenv.PluginManager.
                • qubx_single.rates.RatesFace
                • qubx.util_panels.ScriptsFace: Panel with script editor, python prompt, and output.
                • qubx.select_charts.SelectFace
                • qubx.script_seq.SeqFace
                • qubx.util_panels.SettingsFace: Panel to manage qubx.toolspace.Appearance and other active qubx.settings.
                • qubx.simulate.SimProtoProperties: Panel with protocol shape properties, for QubX.About.
                • qubx.simulate.SimulationFace: Panel to control and orchestrate HMM simulation.
                • qubx.modeling_utils.StarFace
                • qubx.table_panel.TablesFace: Tabbed panel for qubx.tableGTK.TableViews.
                • qubx.util_panels.TasksFace: Panel with "Stop Tasks" button and mean progress bar; monitors qubx.task.Tasks; manages QubX.About.Tasks.
                • qubx.faces.TextFace: Shows a scrolling text area(s).
                  • qubx.util_panels.AboutFace: Panel with welcome message.
                  • qubx.model_charts.ModelTextFace: Displays one model factoid as plain text.
                    • qubx.model_charts.MatrixFace: Displays one matrix or vector, with a copy button for higher-precision tab-separated text.
                • qubx_about_plug.qubx_plugin.ToolPlugin: Base class for top-pane plugin interface with optional worker thread (robot).
                  • qubx_about_plug.qubx_plugin.OptToolPlugin: Base class for optimization plugins.
                    • qubx_about_plug.qubx_plugin.OptToolPluginExample: Sample OptToolPlugin which optimizes rate constants given idealized single-molecule data.
                  • qubx_about_plug.qubx_plugin.ToolPluginExample
                • qubx_mac.qubx_plugin.ToolPlugin: Base class for top-pane plugin interface with optional worker thread (robot).
                  • qubx_mac.qubx_plugin.OptToolPlugin: Base class for optimization plugins.
                    • qubx_mac.qubx_plugin.OptToolPluginExample: Sample OptToolPlugin which optimizes rate constants given idealized single-molecule data.
                    • qubx_mac.rates.RatesFace: Calculates log-likelihood and optimizes model parameters, a la Milescu 2005.
                  • qubx_mac.qubx_plugin.ToolPluginExample
                • qubx_macro_r.qubx_plugin.ToolPlugin: Base class for top-pane plugin interface with optional worker thread (robot).
                  • qubx_macro_r.qubx_plugin.OptToolPlugin: Base class for optimization plugins.
                    • qubx_macro_r.qubx_plugin.OptToolPluginExample: Sample OptToolPlugin which optimizes rate constants given idealized single-molecule data.
                    • qubx_macro_r.rates.RatesFace: Calculates log-likelihood and optimizes model parameters, a la Moffatt 2007.
                  • qubx_macro_r.qubx_plugin.ToolPluginExample
                • qubx_testing.qubx_plugin.ToolPlugin: Base class for top-pane plugin interface with optional worker thread (robot).
                  • qubx_testing.qubx_plugin.OptToolPlugin: Base class for optimization plugins.
                    • qubx_testing.qubx_plugin.OptToolPluginExample: Sample OptToolPlugin which optimizes rate constants given idealized single-molecule data.
                  • qubx_testing.qubx_plugin.ToolPluginExample
                • qubx.faces.ToolsFace: Shows one of a collection of Faces, chosen by tab.
                  • qubx.model_charts.ModelChartsFace: Container for model charts; on model event, calls face.update(model) on active face.
                  • qubx.cube.ModelingFace
                  • qubx.modeling_utils.ModelingUtilsFace: Hosts a registry of generic model/data-based optimizers, and sub-panels which can use them.
                  • qubx.stimulus.StimulusFace: Presents stimulus settings, coordinates mapping of model vars to data stimulus, and performs stimulus idealization.
                • qubx.faces.ToolsToggleFace: Shows one or more of a collection of Faces, toggled visible by left-hand tabs.
                • qubx.workflow.Workflow: Displays a narrative with hypertext-style links.
              • qubx_single.idealize.Idealizers
              • qubx.treeGTK.NodeView: Properties panel for a single qubx.tree.Node.
              • qubx.GTK.NumSliders: Widget containing V2Scale and NumEntry, for kbd and log-slider editing of a number.
              • qubx.optimizeGTK.OptOptionsBox
              • qubx.pyenvGTK.PythonScriptView: Widget for editing and running user scripts.
              • qubx.tableGTK.RowPicker
              • qubx.simulate.SimProtocol: Displays, edits and generates stimulus protocols.
          • gtk.Table: Object GtkTable
            • qubx.GTK.AspectGrid
          • gtk.TextView: Object GtkTextView
            • qubx.GTK.HyperTextView
            • qubx.GTK.HyperTextView2
              • qubx.pyenvGTK.ScriptedLinkView
          • gtk.TreeView: Object GtkTreeView
            • qubx.GTK.CheckList: A gtk.TreeView specialized as a two-column display: checkbox and label
            • qubx.GTK.CountList: A gtk.TreeView specialized as a two-column display: count and label
            • qubx.GTK.DictTable: Specialization of a flat gtk.TreeView that can dynamically add columns for text or number.
            • qubx.pyenvGTK.ExploreTreeView
            • qubx.GTK.MultiList: A gtk.TreeView specialized as a multi-select, single-column list.
            • qubx.GTK.OrderedCheckList: A gtk.TreeView specialized as a two-column display: checkbox and label, plus columns with up and down arrows to modify order
              • qubx.optimizeGTK.OptCheckList
            • qubx.GTK.SimpleList: A gtk.TreeView specialized as a single-select single-column list.
            • qubx.tableGTK.TableView: View/controller for a qubx.table.Table.
            • qubx.treeGTK.TreeView: gtk.Widget for browsing/editing a qubx.tree.Node and its children.
        • gtk.DrawingArea: Object GtkDrawingArea
          • qubx.toolspace.ToolSpace: Base widget with these features:
            • qubx.toolspace.Button_MenuLines
            • qubx.notebookGTK.Button_Notebook
            • qubx.toolspace.Button_Popup
            • qubx.toolspace.Button_Popup_PNG
            • qubx.fit_space.FitSpace: Mirrors and controls a qubx.fit_robot.FitRobot.
              • qubx.hist.HistoPlot: fit_space for a histogram
              • qubx.select_charts.SelectPlot
                • qubx.select_charts.HistPlot
                • qubx.select_charts.OnePlot
                • qubx.select_charts.TwoPlot
              • qubx.select_charts.XMeansPlot
            • qubx.toolspace.Palette
            • qubx.modelGTK.QubModelView: Displays and edits one qubx.model.QubModel.
              • qubx.trials.TrialsView
            • qubx.scope.Scope: View for sampled data with transparent overlay controls, modeled after an oscilloscope.
              • qubx.dataGTK.QubDataView_Base: Specialized Scope for qub data files.
                • qubx.dataGTK.QubDataView_Hi: High-resolution data view
                • qubx.dataGTK.QubDataView_Lo: Low-resolution data view
            • qubx.simulate.SimConstants: Panel for display and editing simdata.constants; makes sure model vars are listed unless they vary in protocol.
            • qubx.simulate.SimProtoChannel: One signal in a SimProtocol.
          • qubx.GTK.Triangle: Shows a triangle; animates when you change angle.
        • gtk.Entry: Object GtkEntry
          • qubx.GTK.CheckListEntry: Text widget showing state of a list of boolean items; clicking shows a popup with checkable items.
            • qubx.GTK.CustomCheckListEntry: Text widget showing state of a list of boolean items; clicking shows a popup with checkable items; "Custom..." bypasses the checkboxes.
              • qubx.extract.SignalMenuEntry
          • qubx.GTK.NumEntry: Originally intended for numbers, this gtk.Entry can parse, validate and display any suitable data type.
        • gtk.Range: Object GtkRange
          • gtk.Scale: Object GtkScale
            • gtk.HScale: Object GtkHScale
              • qubx.GTK.Pow10Slider: Horizontal logarithmish slider with steps at [s * top * 10**(p - powers) for s in steps, for p in range(powers)] + [top].
    • gtk.CellEditable
      • gtk.Entry: Object GtkEntry
        • qubx.GTK.CheckListEntry: Text widget showing state of a list of boolean items; clicking shows a popup with checkable items.
          • qubx.GTK.CustomCheckListEntry: Text widget showing state of a list of boolean items; clicking shows a popup with checkable items; "Custom..." bypasses the checkboxes.
            • qubx.extract.SignalMenuEntry
        • qubx.GTK.NumEntry: Originally intended for numbers, this gtk.Entry can parse, validate and display any suitable data type.
    • gtk.Editable
      • gtk.Entry: Object GtkEntry
        • qubx.GTK.CheckListEntry: Text widget showing state of a list of boolean items; clicking shows a popup with checkable items.
          • qubx.GTK.CustomCheckListEntry: Text widget showing state of a list of boolean items; clicking shows a popup with checkable items; "Custom..." bypasses the checkboxes.
            • qubx.extract.SignalMenuEntry
        • qubx.GTK.NumEntry: Originally intended for numbers, this gtk.Entry can parse, validate and display any suitable data type.
    • atk.ImplementorIface
      • gtk.Widget: Object GtkWidget
        • gtk.Container: Object GtkContainer
          • gtk.Bin: Object GtkBin
            • gtk.Button: Object GtkButton
              • qubx.pyenvGTK.HelpTestButton: A gtk.Button linked to a qubx.GTK.NumEntry, labeled '?', which brings up an appropriate HelpTestDialog.
              • qubx.GTK.TriangleButton: gtk.Button decorated with a Triangle.
                • qubx.GTK.TriangleExpander
            • gtk.EventBox: Object GtkEventBox
              • qubx.GTK.DynamicComboBox: A menu which is re-built each time it drops down.
                • qubx.optimizeGTK.OptMenu
              • qubx.settingsGTK.PresetsMenu: Combo box for managing a category of presets/settings.
              • qubx.GTK.StaticComboList: A menu whose choices never change.
              • qubx.GTK.SuggestiveComboBox: Like NumEntry, with drop-down list of suggestions.
            • gtk.Frame: Object GtkFrame
              • qubx.pyenvGTK.PythonOut: A widget showing sys.stdout.
              • qubx.GTK.V2Scale: Widget with two logarithmic sliders: coarse and fine.
            • gtk.ScrolledWindow: Object GtkScrolledWindow
              • qubx.pyenvGTK.AltMapTable
            • gtk.Window: Object GtkWindow
              • qubx.cube.Cube: Main window of QUB Express, Fitness.
              • gtk.Dialog: Object GtkDialog
                • qubx.GTK.AskOnceDialog: Shows a message, some buttons, and a checkbox "[x] don't show this message again."
                • qubx.GTK.BusyDialog: Modal dialog with progress bar and stop button; supervises a long-running computation.
                • qubx.chop.ChopDialog
                • qubx.GTK.CopyDialog: A customizable copy image dialog
                  • qubx_single.dur_hist.DurHistCopyDialog
                  • qubx.modelGTK.QubModelCopyDialog: Modal window with settings for 'copy model image'.
                  • qubx.spectrum.SpectrumCopyDialog
                • qubx.select_charts.CriteriaDialog
                • qubx.simulate.DoseResp_Ladder_Wizard
                • qubx.dataGTK.DoseResponse_Properties
                • qubx.pyenvGTK.ExploreDialog: Modal window to explore python namespace.
                • qubx.pyenvGTK.HelpTestDialog: Dialog to help write and debug one-liners.
                • qubx.GTK.InputDialog: Prompts the user to write or edit a string.
                • qubx.modelGTK.ModelMerge_Dialog
                • qubx.modelGTK.ModelNbPicturePrefs
                • qubx.treeGTK.NodeDialog: A dialog box to hold the NodeView for editing a single qubx.tree.Node.
                • qubx.GTK.NumEntriesDialog: Prompts the user to write or edit some values.
                • qubx.GTK.NumEntryDialog: Prompts the user to write or edit a string.
                • qubx.simulate.PairedPulse_Wizard
                • qubx.settingsGTK.PresetsDialog: Manage Presets dialog
                • qubx.settingsGTK.PropertiedDialog: Edits a settings category, with OK, Cancel, Presets.
                • qubx.pyenvGTK.PythonEnvironmentDialog: Dialog for editing sys.path extensions and the startup script (see qubx.pyenv.PythonEnvironment).
                • qubx.stimulus.Shaper_ODE_Wizard
                • qubx.simulate.SimNoiseDialog
                • qubx.toolspace.TS_ColorsDialog: Modeless window for changing the (r,g,b,a) values in appearance.colors.
                • qubx.treeGTK.TreeDialog: Dialog for modal editing of a qubx.tree.Node and its children.
              • qubx.modelGTK.IeqFvAboutBox
              • qubx.dataGTK.KeyMessageBox
              • qubx.pyenvGTK.PythonScriptWindow: Window for editing and running user scripts.
              • qubx.fit_space.StrategyDialog
              • qubx.treeGTK.TreeWindow: A top-level gtk.Window with a TreeView for editing a qubx.tree.Node and its children.
          • gtk.Box: Object GtkBox
            • gtk.HBox: Object GtkHBox
              • qubx.idealize.BaumWelchIdealizer
              • qubx.stimulus.ByDeltaARIdealizer
              • qubx.stimulus.ByDeltaIdealizer
              • qubx.select_charts.CriteriaEntry
              • qubx.GTK.DateBox: Widget for entering/editing legitimate datetime.datetime values.
              • qubx_idl_mdl.idealizer.MDLIdealizer
              • qubx.notebookGTK.NbControls_HTML
              • qubx.pyenvGTK.PythonPrompt: A widget which lets the user execute a line of python.
              • qubx.idealize.SKMIdealizer
              • qubx.stimulus.Shaper_ODE_Wizard_Param
              • qubx.tableGTK.TableViewCtrls: A row of controls for the top of some TableViews.
              • qubx.GTK.ZoomBar: Widget combining H scrollbar with zoom in/out buttons.
            • gtk.VBox: Object GtkVBox
              • qubx.pyenvGTK.ExploreObjView
              • qubx.faces.Face: Base container class.
                • qubx_about_plug.qubx_plugin.AboutPlugin
                  • qubx_about_plug.qubx_plugin.AboutPluginExample
                  • qubx_about_plug.qubx_about_testing.TestingFace
                • qubx_mac.qubx_plugin.AboutPlugin
                  • qubx_mac.qubx_plugin.AboutPluginExample
                • qubx_macro_r.qubx_plugin.AboutPlugin
                  • qubx_macro_r.qubx_plugin.AboutPluginExample
                • qubx_testing.qubx_plugin.AboutPlugin
                  • qubx_testing.qubx_plugin.AboutPluginExample
                • qubx.util_panels.AltKeysFace: Panel with alt-combo -> script mapping.
                • qubx_testing.calcserv.CalcServ
                • qubx.modeling_utils.ChainFace
                • qubx.modeling_utils.ClassifyFace
                • qubx.data_panel.DataSourceFace: Panel with source signal and file/screen; monitors QubX.DataSource and handles presets.
                • qubx.extract.ExtractFace
                • qubx.faces.FilesFace: Base class for a widget that manages multiple open files; e.g Data, Model.
                  • qubx.data_panel.DataFace: Panel displaying one of possibly several open data files.
                  • qubx.models_panel.ModelsFace: Panel showing one of possibly many open model files.
                • qubx.hill.HillFace: Measures, displays, updates the dose-response curve for frontmost data, and fits to the Hill equation.
                • qubx.hist.HistFace: Base class for panel showing one or more pages of histograms which are updated on a background thread (robot).
                  • qubx.hist.DataHistFace: Base class for a histogram panel which updates when the sampled data source changes.
                    • qubx.hist.AmpHistFace: Panel showing the all-points amplitude histogram of one signal.
                    • qubx.spectrum.SpectrumFace
                  • qubx_single.dur_hist.DurHistFace
                • qubx.idealize.IdlFace: Hosts idealization methods, many from qubx_single_molecule plugin.
                • qubx.ideal_tools.IdlToolsFace
                • qubx.kalman.KalmanFace
                • qubx.list_average.ListAverageFace: Panel showing live average of front List.
                • qubx.list_figure.ListFigureFace: Panel which generates high-quality figures from the selection list.
                • qubx.modeling_utils.ModelSearchFace
                • qubx.notebookGTK.NbEntryFace
                • qubx.notebookGTK.NotebookFace
                • qubx.stimulus.OneStimulusFace
                • qubx.optimizeGTK.OptOptions
                • qubx.optimizeGTK.OptOptionsFace
                • qubx.modeling_utils.PerturbFace
                • qubx.util_panels.PluginsFace: Face to manage qubx.pyenv.Plugins, the qubx.pyenv.PluginManager.
                • qubx_single.rates.RatesFace
                • qubx.util_panels.ScriptsFace: Panel with script editor, python prompt, and output.
                • qubx.select_charts.SelectFace
                • qubx.script_seq.SeqFace
                • qubx.util_panels.SettingsFace: Panel to manage qubx.toolspace.Appearance and other active qubx.settings.
                • qubx.simulate.SimProtoProperties: Panel with protocol shape properties, for QubX.About.
                • qubx.simulate.SimulationFace: Panel to control and orchestrate HMM simulation.
                • qubx.modeling_utils.StarFace
                • qubx.table_panel.TablesFace: Tabbed panel for qubx.tableGTK.TableViews.
                • qubx.util_panels.TasksFace: Panel with "Stop Tasks" button and mean progress bar; monitors qubx.task.Tasks; manages QubX.About.Tasks.
                • qubx.faces.TextFace: Shows a scrolling text area(s).
                  • qubx.util_panels.AboutFace: Panel with welcome message.
                  • qubx.model_charts.ModelTextFace: Displays one model factoid as plain text.
                    • qubx.model_charts.MatrixFace: Displays one matrix or vector, with a copy button for higher-precision tab-separated text.
                • qubx_about_plug.qubx_plugin.ToolPlugin: Base class for top-pane plugin interface with optional worker thread (robot).
                  • qubx_about_plug.qubx_plugin.OptToolPlugin: Base class for optimization plugins.
                    • qubx_about_plug.qubx_plugin.OptToolPluginExample: Sample OptToolPlugin which optimizes rate constants given idealized single-molecule data.
                  • qubx_about_plug.qubx_plugin.ToolPluginExample
                • qubx_mac.qubx_plugin.ToolPlugin: Base class for top-pane plugin interface with optional worker thread (robot).
                  • qubx_mac.qubx_plugin.OptToolPlugin: Base class for optimization plugins.
                    • qubx_mac.qubx_plugin.OptToolPluginExample: Sample OptToolPlugin which optimizes rate constants given idealized single-molecule data.
                    • qubx_mac.rates.RatesFace: Calculates log-likelihood and optimizes model parameters, a la Milescu 2005.
                  • qubx_mac.qubx_plugin.ToolPluginExample
                • qubx_macro_r.qubx_plugin.ToolPlugin: Base class for top-pane plugin interface with optional worker thread (robot).
                  • qubx_macro_r.qubx_plugin.OptToolPlugin: Base class for optimization plugins.
                    • qubx_macro_r.qubx_plugin.OptToolPluginExample: Sample OptToolPlugin which optimizes rate constants given idealized single-molecule data.
                    • qubx_macro_r.rates.RatesFace: Calculates log-likelihood and optimizes model parameters, a la Moffatt 2007.
                  • qubx_macro_r.qubx_plugin.ToolPluginExample
                • qubx_testing.qubx_plugin.ToolPlugin: Base class for top-pane plugin interface with optional worker thread (robot).
                  • qubx_testing.qubx_plugin.OptToolPlugin: Base class for optimization plugins.
                    • qubx_testing.qubx_plugin.OptToolPluginExample: Sample OptToolPlugin which optimizes rate constants given idealized single-molecule data.
                  • qubx_testing.qubx_plugin.ToolPluginExample
                • qubx.faces.ToolsFace: Shows one of a collection of Faces, chosen by tab.
                  • qubx.model_charts.ModelChartsFace: Container for model charts; on model event, calls face.update(model) on active face.
                  • qubx.cube.ModelingFace
                  • qubx.modeling_utils.ModelingUtilsFace: Hosts a registry of generic model/data-based optimizers, and sub-panels which can use them.
                  • qubx.stimulus.StimulusFace: Presents stimulus settings, coordinates mapping of model vars to data stimulus, and performs stimulus idealization.
                • qubx.faces.ToolsToggleFace: Shows one or more of a collection of Faces, toggled visible by left-hand tabs.
                • qubx.workflow.Workflow: Displays a narrative with hypertext-style links.
              • qubx_single.idealize.Idealizers
              • qubx.treeGTK.NodeView: Properties panel for a single qubx.tree.Node.
              • qubx.GTK.NumSliders: Widget containing V2Scale and NumEntry, for kbd and log-slider editing of a number.
              • qubx.optimizeGTK.OptOptionsBox
              • qubx.pyenvGTK.PythonScriptView: Widget for editing and running user scripts.
              • qubx.tableGTK.RowPicker
              • qubx.simulate.SimProtocol: Displays, edits and generates stimulus protocols.
          • gtk.Table: Object GtkTable
            • qubx.GTK.AspectGrid
          • gtk.TextView: Object GtkTextView
            • qubx.GTK.HyperTextView
            • qubx.GTK.HyperTextView2
              • qubx.pyenvGTK.ScriptedLinkView
          • gtk.TreeView: Object GtkTreeView
            • qubx.GTK.CheckList: A gtk.TreeView specialized as a two-column display: checkbox and label
            • qubx.GTK.CountList: A gtk.TreeView specialized as a two-column display: count and label
            • qubx.GTK.DictTable: Specialization of a flat gtk.TreeView that can dynamically add columns for text or number.
            • qubx.pyenvGTK.ExploreTreeView
            • qubx.GTK.MultiList: A gtk.TreeView specialized as a multi-select, single-column list.
            • qubx.GTK.OrderedCheckList: A gtk.TreeView specialized as a two-column display: checkbox and label, plus columns with up and down arrows to modify order
              • qubx.optimizeGTK.OptCheckList
            • qubx.GTK.SimpleList: A gtk.TreeView specialized as a single-select single-column list.
            • qubx.tableGTK.TableView: View/controller for a qubx.table.Table.
            • qubx.treeGTK.TreeView: gtk.Widget for browsing/editing a qubx.tree.Node and its children.
        • gtk.DrawingArea: Object GtkDrawingArea
          • qubx.toolspace.ToolSpace: Base widget with these features:
            • qubx.toolspace.Button_MenuLines
            • qubx.notebookGTK.Button_Notebook
            • qubx.toolspace.Button_Popup
            • qubx.toolspace.Button_Popup_PNG
            • qubx.fit_space.FitSpace: Mirrors and controls a qubx.fit_robot.FitRobot.
              • qubx.hist.HistoPlot: fit_space for a histogram
              • qubx.select_charts.SelectPlot
                • qubx.select_charts.HistPlot
                • qubx.select_charts.OnePlot
                • qubx.select_charts.TwoPlot
              • qubx.select_charts.XMeansPlot
            • qubx.toolspace.Palette
            • qubx.modelGTK.QubModelView: Displays and edits one qubx.model.QubModel.
              • qubx.trials.TrialsView
            • qubx.scope.Scope: View for sampled data with transparent overlay controls, modeled after an oscilloscope.
              • qubx.dataGTK.QubDataView_Base: Specialized Scope for qub data files.
                • qubx.dataGTK.QubDataView_Hi: High-resolution data view
                • qubx.dataGTK.QubDataView_Lo: Low-resolution data view
            • qubx.simulate.SimConstants: Panel for display and editing simdata.constants; makes sure model vars are listed unless they vary in protocol.
            • qubx.simulate.SimProtoChannel: One signal in a SimProtocol.
          • qubx.GTK.Triangle: Shows a triangle; animates when you change angle.
        • gtk.Entry: Object GtkEntry
          • qubx.GTK.CheckListEntry: Text widget showing state of a list of boolean items; clicking shows a popup with checkable items.
            • qubx.GTK.CustomCheckListEntry: Text widget showing state of a list of boolean items; clicking shows a popup with checkable items; "Custom..." bypasses the checkboxes.
              • qubx.extract.SignalMenuEntry
          • qubx.GTK.NumEntry: Originally intended for numbers, this gtk.Entry can parse, validate and display any suitable data type.
        • gtk.Range: Object GtkRange
          • gtk.Scale: Object GtkScale
            • gtk.HScale: Object GtkHScale
              • qubx.GTK.Pow10Slider: Horizontal logarithmish slider with steps at [s * top * 10**(p - powers) for s in steps, for p in range(powers)] + [top].
    • gtk.Orientable
      • gtk.Box: Object GtkBox
        • gtk.HBox: Object GtkHBox
          • qubx.idealize.BaumWelchIdealizer
          • qubx.stimulus.ByDeltaARIdealizer
          • qubx.stimulus.ByDeltaIdealizer
          • qubx.select_charts.CriteriaEntry
          • qubx.GTK.DateBox: Widget for entering/editing legitimate datetime.datetime values.
          • qubx_idl_mdl.idealizer.MDLIdealizer
          • qubx.notebookGTK.NbControls_HTML
          • qubx.pyenvGTK.PythonPrompt: A widget which lets the user execute a line of python.
          • qubx.idealize.SKMIdealizer
          • qubx.stimulus.Shaper_ODE_Wizard_Param
          • qubx.tableGTK.TableViewCtrls: A row of controls for the top of some TableViews.
          • qubx.GTK.ZoomBar: Widget combining H scrollbar with zoom in/out buttons.
        • gtk.VBox: Object GtkVBox
          • qubx.pyenvGTK.ExploreObjView
          • qubx.faces.Face: Base container class.
            • qubx_about_plug.qubx_plugin.AboutPlugin
              • qubx_about_plug.qubx_plugin.AboutPluginExample
              • qubx_about_plug.qubx_about_testing.TestingFace
            • qubx_mac.qubx_plugin.AboutPlugin
              • qubx_mac.qubx_plugin.AboutPluginExample
            • qubx_macro_r.qubx_plugin.AboutPlugin
              • qubx_macro_r.qubx_plugin.AboutPluginExample
            • qubx_testing.qubx_plugin.AboutPlugin
              • qubx_testing.qubx_plugin.AboutPluginExample
            • qubx.util_panels.AltKeysFace: Panel with alt-combo -> script mapping.
            • qubx_testing.calcserv.CalcServ
            • qubx.modeling_utils.ChainFace
            • qubx.modeling_utils.ClassifyFace
            • qubx.data_panel.DataSourceFace: Panel with source signal and file/screen; monitors QubX.DataSource and handles presets.
            • qubx.extract.ExtractFace
            • qubx.faces.FilesFace: Base class for a widget that manages multiple open files; e.g Data, Model.
              • qubx.data_panel.DataFace: Panel displaying one of possibly several open data files.
              • qubx.models_panel.ModelsFace: Panel showing one of possibly many open model files.
            • qubx.hill.HillFace: Measures, displays, updates the dose-response curve for frontmost data, and fits to the Hill equation.
            • qubx.hist.HistFace: Base class for panel showing one or more pages of histograms which are updated on a background thread (robot).
              • qubx.hist.DataHistFace: Base class for a histogram panel which updates when the sampled data source changes.
                • qubx.hist.AmpHistFace: Panel showing the all-points amplitude histogram of one signal.
                • qubx.spectrum.SpectrumFace
              • qubx_single.dur_hist.DurHistFace
            • qubx.idealize.IdlFace: Hosts idealization methods, many from qubx_single_molecule plugin.
            • qubx.ideal_tools.IdlToolsFace
            • qubx.kalman.KalmanFace
            • qubx.list_average.ListAverageFace: Panel showing live average of front List.
            • qubx.list_figure.ListFigureFace: Panel which generates high-quality figures from the selection list.
            • qubx.modeling_utils.ModelSearchFace
            • qubx.notebookGTK.NbEntryFace
            • qubx.notebookGTK.NotebookFace
            • qubx.stimulus.OneStimulusFace
            • qubx.optimizeGTK.OptOptions
            • qubx.optimizeGTK.OptOptionsFace
            • qubx.modeling_utils.PerturbFace
            • qubx.util_panels.PluginsFace: Face to manage qubx.pyenv.Plugins, the qubx.pyenv.PluginManager.
            • qubx_single.rates.RatesFace
            • qubx.util_panels.ScriptsFace: Panel with script editor, python prompt, and output.
            • qubx.select_charts.SelectFace
            • qubx.script_seq.SeqFace
            • qubx.util_panels.SettingsFace: Panel to manage qubx.toolspace.Appearance and other active qubx.settings.
            • qubx.simulate.SimProtoProperties: Panel with protocol shape properties, for QubX.About.
            • qubx.simulate.SimulationFace: Panel to control and orchestrate HMM simulation.
            • qubx.modeling_utils.StarFace
            • qubx.table_panel.TablesFace: Tabbed panel for qubx.tableGTK.TableViews.
            • qubx.util_panels.TasksFace: Panel with "Stop Tasks" button and mean progress bar; monitors qubx.task.Tasks; manages QubX.About.Tasks.
            • qubx.faces.TextFace: Shows a scrolling text area(s).
              • qubx.util_panels.AboutFace: Panel with welcome message.
              • qubx.model_charts.ModelTextFace: Displays one model factoid as plain text.
                • qubx.model_charts.MatrixFace: Displays one matrix or vector, with a copy button for higher-precision tab-separated text.
            • qubx_about_plug.qubx_plugin.ToolPlugin: Base class for top-pane plugin interface with optional worker thread (robot).
              • qubx_about_plug.qubx_plugin.OptToolPlugin: Base class for optimization plugins.
                • qubx_about_plug.qubx_plugin.OptToolPluginExample: Sample OptToolPlugin which optimizes rate constants given idealized single-molecule data.
              • qubx_about_plug.qubx_plugin.ToolPluginExample
            • qubx_mac.qubx_plugin.ToolPlugin: Base class for top-pane plugin interface with optional worker thread (robot).
              • qubx_mac.qubx_plugin.OptToolPlugin: Base class for optimization plugins.
                • qubx_mac.qubx_plugin.OptToolPluginExample: Sample OptToolPlugin which optimizes rate constants given idealized single-molecule data.
                • qubx_mac.rates.RatesFace: Calculates log-likelihood and optimizes model parameters, a la Milescu 2005.
              • qubx_mac.qubx_plugin.ToolPluginExample
            • qubx_macro_r.qubx_plugin.ToolPlugin: Base class for top-pane plugin interface with optional worker thread (robot).
              • qubx_macro_r.qubx_plugin.OptToolPlugin: Base class for optimization plugins.
                • qubx_macro_r.qubx_plugin.OptToolPluginExample: Sample OptToolPlugin which optimizes rate constants given idealized single-molecule data.
                • qubx_macro_r.rates.RatesFace: Calculates log-likelihood and optimizes model parameters, a la Moffatt 2007.
              • qubx_macro_r.qubx_plugin.ToolPluginExample
            • qubx_testing.qubx_plugin.ToolPlugin: Base class for top-pane plugin interface with optional worker thread (robot).
              • qubx_testing.qubx_plugin.OptToolPlugin: Base class for optimization plugins.
                • qubx_testing.qubx_plugin.OptToolPluginExample: Sample OptToolPlugin which optimizes rate constants given idealized single-molecule data.
              • qubx_testing.qubx_plugin.ToolPluginExample
            • qubx.faces.ToolsFace: Shows one of a collection of Faces, chosen by tab.
              • qubx.model_charts.ModelChartsFace: Container for model charts; on model event, calls face.update(model) on active face.
              • qubx.cube.ModelingFace
              • qubx.modeling_utils.ModelingUtilsFace: Hosts a registry of generic model/data-based optimizers, and sub-panels which can use them.
              • qubx.stimulus.StimulusFace: Presents stimulus settings, coordinates mapping of model vars to data stimulus, and performs stimulus idealization.
            • qubx.faces.ToolsToggleFace: Shows one or more of a collection of Faces, toggled visible by left-hand tabs.
            • qubx.workflow.Workflow: Displays a narrative with hypertext-style links.
          • qubx_single.idealize.Idealizers
          • qubx.treeGTK.NodeView: Properties panel for a single qubx.tree.Node.
          • qubx.GTK.NumSliders: Widget containing V2Scale and NumEntry, for kbd and log-slider editing of a number.
          • qubx.optimizeGTK.OptOptionsBox
          • qubx.pyenvGTK.PythonScriptView: Widget for editing and running user scripts.
          • qubx.tableGTK.RowPicker
          • qubx.simulate.SimProtocol: Displays, edits and generates stimulus protocols.
      • gtk.Range: Object GtkRange
        • gtk.Scale: Object GtkScale
          • gtk.HScale: Object GtkHScale
            • qubx.GTK.Pow10Slider: Horizontal logarithmish slider with steps at [s * top * 10**(p - powers) for s in steps, for p in range(powers)] + [top].
  • unreachable.GObject: Object GObject
    • gtk.Object: Object GtkObject
      • gtk.Widget: Object GtkWidget
        • gtk.Container: Object GtkContainer
          • gtk.Bin: Object GtkBin
            • gtk.Button: Object GtkButton
              • qubx.pyenvGTK.HelpTestButton: A gtk.Button linked to a qubx.GTK.NumEntry, labeled '?', which brings up an appropriate HelpTestDialog.
              • qubx.GTK.TriangleButton: gtk.Button decorated with a Triangle.
                • qubx.GTK.TriangleExpander
            • gtk.EventBox: Object GtkEventBox
              • qubx.GTK.DynamicComboBox: A menu which is re-built each time it drops down.
                • qubx.optimizeGTK.OptMenu
              • qubx.settingsGTK.PresetsMenu: Combo box for managing a category of presets/settings.
              • qubx.GTK.StaticComboList: A menu whose choices never change.
              • qubx.GTK.SuggestiveComboBox: Like NumEntry, with drop-down list of suggestions.
            • gtk.Frame: Object GtkFrame
              • qubx.pyenvGTK.PythonOut: A widget showing sys.stdout.
              • qubx.GTK.V2Scale: Widget with two logarithmic sliders: coarse and fine.
            • gtk.ScrolledWindow: Object GtkScrolledWindow
              • qubx.pyenvGTK.AltMapTable
            • gtk.Window: Object GtkWindow
              • qubx.cube.Cube: Main window of QUB Express, Fitness.
              • gtk.Dialog: Object GtkDialog
                • qubx.GTK.AskOnceDialog: Shows a message, some buttons, and a checkbox "[x] don't show this message again."
                • qubx.GTK.BusyDialog: Modal dialog with progress bar and stop button; supervises a long-running computation.
                • qubx.chop.ChopDialog
                • qubx.GTK.CopyDialog: A customizable copy image dialog
                  • qubx_single.dur_hist.DurHistCopyDialog
                  • qubx.modelGTK.QubModelCopyDialog: Modal window with settings for 'copy model image'.
                  • qubx.spectrum.SpectrumCopyDialog
                • qubx.select_charts.CriteriaDialog
                • qubx.simulate.DoseResp_Ladder_Wizard
                • qubx.dataGTK.DoseResponse_Properties
                • qubx.pyenvGTK.ExploreDialog: Modal window to explore python namespace.
                • qubx.pyenvGTK.HelpTestDialog: Dialog to help write and debug one-liners.
                • qubx.GTK.InputDialog: Prompts the user to write or edit a string.
                • qubx.modelGTK.ModelMerge_Dialog
                • qubx.modelGTK.ModelNbPicturePrefs
                • qubx.treeGTK.NodeDialog: A dialog box to hold the NodeView for editing a single qubx.tree.Node.
                • qubx.GTK.NumEntriesDialog: Prompts the user to write or edit some values.
                • qubx.GTK.NumEntryDialog: Prompts the user to write or edit a string.
                • qubx.simulate.PairedPulse_Wizard
                • qubx.settingsGTK.PresetsDialog: Manage Presets dialog
                • qubx.settingsGTK.PropertiedDialog: Edits a settings category, with OK, Cancel, Presets.
                • qubx.pyenvGTK.PythonEnvironmentDialog: Dialog for editing sys.path extensions and the startup script (see qubx.pyenv.PythonEnvironment).
                • qubx.stimulus.Shaper_ODE_Wizard
                • qubx.simulate.SimNoiseDialog
                • qubx.toolspace.TS_ColorsDialog: Modeless window for changing the (r,g,b,a) values in appearance.colors.
                • qubx.treeGTK.TreeDialog: Dialog for modal editing of a qubx.tree.Node and its children.
              • qubx.modelGTK.IeqFvAboutBox
              • qubx.dataGTK.KeyMessageBox
              • qubx.pyenvGTK.PythonScriptWindow: Window for editing and running user scripts.
              • qubx.fit_space.StrategyDialog
              • qubx.treeGTK.TreeWindow: A top-level gtk.Window with a TreeView for editing a qubx.tree.Node and its children.
          • gtk.Box: Object GtkBox
            • gtk.HBox: Object GtkHBox
              • qubx.idealize.BaumWelchIdealizer
              • qubx.stimulus.ByDeltaARIdealizer
              • qubx.stimulus.ByDeltaIdealizer
              • qubx.select_charts.CriteriaEntry
              • qubx.GTK.DateBox: Widget for entering/editing legitimate datetime.datetime values.
              • qubx_idl_mdl.idealizer.MDLIdealizer
              • qubx.notebookGTK.NbControls_HTML
              • qubx.pyenvGTK.PythonPrompt: A widget which lets the user execute a line of python.
              • qubx.idealize.SKMIdealizer
              • qubx.stimulus.Shaper_ODE_Wizard_Param
              • qubx.tableGTK.TableViewCtrls: A row of controls for the top of some TableViews.
              • qubx.GTK.ZoomBar: Widget combining H scrollbar with zoom in/out buttons.
            • gtk.VBox: Object GtkVBox
              • qubx.pyenvGTK.ExploreObjView
              • qubx.faces.Face: Base container class.
                • qubx_about_plug.qubx_plugin.AboutPlugin
                  • qubx_about_plug.qubx_plugin.AboutPluginExample
                  • qubx_about_plug.qubx_about_testing.TestingFace
                • qubx_mac.qubx_plugin.AboutPlugin
                  • qubx_mac.qubx_plugin.AboutPluginExample
                • qubx_macro_r.qubx_plugin.AboutPlugin
                  • qubx_macro_r.qubx_plugin.AboutPluginExample
                • qubx_testing.qubx_plugin.AboutPlugin
                  • qubx_testing.qubx_plugin.AboutPluginExample
                • qubx.util_panels.AltKeysFace: Panel with alt-combo -> script mapping.
                • qubx_testing.calcserv.CalcServ
                • qubx.modeling_utils.ChainFace
                • qubx.modeling_utils.ClassifyFace
                • qubx.data_panel.DataSourceFace: Panel with source signal and file/screen; monitors QubX.DataSource and handles presets.
                • qubx.extract.ExtractFace
                • qubx.faces.FilesFace: Base class for a widget that manages multiple open files; e.g Data, Model.
                  • qubx.data_panel.DataFace: Panel displaying one of possibly several open data files.
                  • qubx.models_panel.ModelsFace: Panel showing one of possibly many open model files.
                • qubx.hill.HillFace: Measures, displays, updates the dose-response curve for frontmost data, and fits to the Hill equation.
                • qubx.hist.HistFace: Base class for panel showing one or more pages of histograms which are updated on a background thread (robot).
                  • qubx.hist.DataHistFace: Base class for a histogram panel which updates when the sampled data source changes.
                    • qubx.hist.AmpHistFace: Panel showing the all-points amplitude histogram of one signal.
                    • qubx.spectrum.SpectrumFace
                  • qubx_single.dur_hist.DurHistFace
                • qubx.idealize.IdlFace: Hosts idealization methods, many from qubx_single_molecule plugin.
                • qubx.ideal_tools.IdlToolsFace
                • qubx.kalman.KalmanFace
                • qubx.list_average.ListAverageFace: Panel showing live average of front List.
                • qubx.list_figure.ListFigureFace: Panel which generates high-quality figures from the selection list.
                • qubx.modeling_utils.ModelSearchFace
                • qubx.notebookGTK.NbEntryFace
                • qubx.notebookGTK.NotebookFace
                • qubx.stimulus.OneStimulusFace
                • qubx.optimizeGTK.OptOptions
                • qubx.optimizeGTK.OptOptionsFace
                • qubx.modeling_utils.PerturbFace
                • qubx.util_panels.PluginsFace: Face to manage qubx.pyenv.Plugins, the qubx.pyenv.PluginManager.
                • qubx_single.rates.RatesFace
                • qubx.util_panels.ScriptsFace: Panel with script editor, python prompt, and output.
                • qubx.select_charts.SelectFace
                • qubx.script_seq.SeqFace
                • qubx.util_panels.SettingsFace: Panel to manage qubx.toolspace.Appearance and other active qubx.settings.
                • qubx.simulate.SimProtoProperties: Panel with protocol shape properties, for QubX.About.
                • qubx.simulate.SimulationFace: Panel to control and orchestrate HMM simulation.
                • qubx.modeling_utils.StarFace
                • qubx.table_panel.TablesFace: Tabbed panel for qubx.tableGTK.TableViews.
                • qubx.util_panels.TasksFace: Panel with "Stop Tasks" button and mean progress bar; monitors qubx.task.Tasks; manages QubX.About.Tasks.
                • qubx.faces.TextFace: Shows a scrolling text area(s).
                  • qubx.util_panels.AboutFace: Panel with welcome message.
                  • qubx.model_charts.ModelTextFace: Displays one model factoid as plain text.
                    • qubx.model_charts.MatrixFace: Displays one matrix or vector, with a copy button for higher-precision tab-separated text.
                • qubx_about_plug.qubx_plugin.ToolPlugin: Base class for top-pane plugin interface with optional worker thread (robot).
                  • qubx_about_plug.qubx_plugin.OptToolPlugin: Base class for optimization plugins.
                    • qubx_about_plug.qubx_plugin.OptToolPluginExample: Sample OptToolPlugin which optimizes rate constants given idealized single-molecule data.
                  • qubx_about_plug.qubx_plugin.ToolPluginExample
                • qubx_mac.qubx_plugin.ToolPlugin: Base class for top-pane plugin interface with optional worker thread (robot).
                  • qubx_mac.qubx_plugin.OptToolPlugin: Base class for optimization plugins.
                    • qubx_mac.qubx_plugin.OptToolPluginExample: Sample OptToolPlugin which optimizes rate constants given idealized single-molecule data.
                    • qubx_mac.rates.RatesFace: Calculates log-likelihood and optimizes model parameters, a la Milescu 2005.
                  • qubx_mac.qubx_plugin.ToolPluginExample
                • qubx_macro_r.qubx_plugin.ToolPlugin: Base class for top-pane plugin interface with optional worker thread (robot).
                  • qubx_macro_r.qubx_plugin.OptToolPlugin: Base class for optimization plugins.
                    • qubx_macro_r.qubx_plugin.OptToolPluginExample: Sample OptToolPlugin which optimizes rate constants given idealized single-molecule data.
                    • qubx_macro_r.rates.RatesFace: Calculates log-likelihood and optimizes model parameters, a la Moffatt 2007.
                  • qubx_macro_r.qubx_plugin.ToolPluginExample
                • qubx_testing.qubx_plugin.ToolPlugin: Base class for top-pane plugin interface with optional worker thread (robot).
                  • qubx_testing.qubx_plugin.OptToolPlugin: Base class for optimization plugins.
                    • qubx_testing.qubx_plugin.OptToolPluginExample: Sample OptToolPlugin which optimizes rate constants given idealized single-molecule data.
                  • qubx_testing.qubx_plugin.ToolPluginExample
                • qubx.faces.ToolsFace: Shows one of a collection of Faces, chosen by tab.
                  • qubx.model_charts.ModelChartsFace: Container for model charts; on model event, calls face.update(model) on active face.
                  • qubx.cube.ModelingFace
                  • qubx.modeling_utils.ModelingUtilsFace: Hosts a registry of generic model/data-based optimizers, and sub-panels which can use them.
                  • qubx.stimulus.StimulusFace: Presents stimulus settings, coordinates mapping of model vars to data stimulus, and performs stimulus idealization.
                • qubx.faces.ToolsToggleFace: Shows one or more of a collection of Faces, toggled visible by left-hand tabs.
                • qubx.workflow.Workflow: Displays a narrative with hypertext-style links.
              • qubx_single.idealize.Idealizers
              • qubx.treeGTK.NodeView: Properties panel for a single qubx.tree.Node.
              • qubx.GTK.NumSliders: Widget containing V2Scale and NumEntry, for kbd and log-slider editing of a number.
              • qubx.optimizeGTK.OptOptionsBox
              • qubx.pyenvGTK.PythonScriptView: Widget for editing and running user scripts.
              • qubx.tableGTK.RowPicker
              • qubx.simulate.SimProtocol: Displays, edits and generates stimulus protocols.
          • gtk.Table: Object GtkTable
            • qubx.GTK.AspectGrid
          • gtk.TextView: Object GtkTextView
            • qubx.GTK.HyperTextView
            • qubx.GTK.HyperTextView2
              • qubx.pyenvGTK.ScriptedLinkView
          • gtk.TreeView: Object GtkTreeView
            • qubx.GTK.CheckList: A gtk.TreeView specialized as a two-column display: checkbox and label
            • qubx.GTK.CountList: A gtk.TreeView specialized as a two-column display: count and label
            • qubx.GTK.DictTable: Specialization of a flat gtk.TreeView that can dynamically add columns for text or number.
            • qubx.pyenvGTK.ExploreTreeView
            • qubx.GTK.MultiList: A gtk.TreeView specialized as a multi-select, single-column list.
            • qubx.GTK.OrderedCheckList: A gtk.TreeView specialized as a two-column display: checkbox and label, plus columns with up and down arrows to modify order
              • qubx.optimizeGTK.OptCheckList
            • qubx.GTK.SimpleList: A gtk.TreeView specialized as a single-select single-column list.
            • qubx.tableGTK.TableView: View/controller for a qubx.table.Table.
            • qubx.treeGTK.TreeView: gtk.Widget for browsing/editing a qubx.tree.Node and its children.
        • gtk.DrawingArea: Object GtkDrawingArea
          • qubx.toolspace.ToolSpace: Base widget with these features:
            • qubx.toolspace.Button_MenuLines
            • qubx.notebookGTK.Button_Notebook
            • qubx.toolspace.Button_Popup
            • qubx.toolspace.Button_Popup_PNG
            • qubx.fit_space.FitSpace: Mirrors and controls a qubx.fit_robot.FitRobot.
              • qubx.hist.HistoPlot: fit_space for a histogram
              • qubx.select_charts.SelectPlot
                • qubx.select_charts.HistPlot
                • qubx.select_charts.OnePlot
                • qubx.select_charts.TwoPlot
              • qubx.select_charts.XMeansPlot
            • qubx.toolspace.Palette
            • qubx.modelGTK.QubModelView: Displays and edits one qubx.model.QubModel.
              • qubx.trials.TrialsView
            • qubx.scope.Scope: View for sampled data with transparent overlay controls, modeled after an oscilloscope.
              • qubx.dataGTK.QubDataView_Base: Specialized Scope for qub data files.
                • qubx.dataGTK.QubDataView_Hi: High-resolution data view
                • qubx.dataGTK.QubDataView_Lo: Low-resolution data view
            • qubx.simulate.SimConstants: Panel for display and editing simdata.constants; makes sure model vars are listed unless they vary in protocol.
            • qubx.simulate.SimProtoChannel: One signal in a SimProtocol.
          • qubx.GTK.Triangle: Shows a triangle; animates when you change angle.
        • gtk.Entry: Object GtkEntry
          • qubx.GTK.CheckListEntry: Text widget showing state of a list of boolean items; clicking shows a popup with checkable items.
            • qubx.GTK.CustomCheckListEntry: Text widget showing state of a list of boolean items; clicking shows a popup with checkable items; "Custom..." bypasses the checkboxes.
              • qubx.extract.SignalMenuEntry
          • qubx.GTK.NumEntry: Originally intended for numbers, this gtk.Entry can parse, validate and display any suitable data type.
        • gtk.Range: Object GtkRange
          • gtk.Scale: Object GtkScale
            • gtk.HScale: Object GtkHScale
              • qubx.GTK.Pow10Slider: Horizontal logarithmish slider with steps at [s * top * 10**(p - powers) for s in steps, for p in range(powers)] + [top].
  • qubx.task.GTK_Main_Hold: Context manager, for use in a Task thread, which pauses the main thread while it is entered.
  • qubx.ideal.Idealization
    • qubx.ideal.IdlFits
  • qubx.ideal.IdlIter
  • qubx.ideal.IdlRecord
  • qubx.ideal.IdlRecords
  • qubx.ideal.IdlRecordsIter
  • qubx.fast.data.IdlStats
  • qubx.fast.data.IdlStim: Idealizes a stimulus signal.
  • qubx.data_types.IdlUpdater: Manages updates to idealization to make them undoable and to emit the OnChangeIdealization event; make sure to call done().
  • qubx.fast.data.Idl_AdaptiveResample: Idealizes a stimulus signal.
  • qubx.toolspace.Layer: A floating, transparent, clickable area in a ToolSpace.
    • qubx.fit_space.Layer_Correl: Displays a large-size, labeled cross-correlation matrix, modally.
    • qubx.dataGTK.Layer_Lists
    • qubx.fit_space.Layer_Param: Presents details about one parameter, as when the user clicks "..." in the upper-left param list; you run() it like a dialog.
    • qubx.toolspace.Layer_Toolbar: Layer containing a row or column of buttons; automatically laid out; spotlighted on rollover with tooltips.
    • qubx.scope.ScopeSignal: Floating layer controlling the display of one signal (or time).
    • qubx.dataGTK.TimeControlLayer: Floating controls for which/how many segments to show, and what time range.
  • qubx.toolspace.LayerSet
    • qubx.fit_space.FitControls: Toolspace layers to control a qubx.fit_robots.FitSession.
      • qubx.data_fit.DataFitControls: qubx.toolspace.LayerSet to add least-squares curve fitting to the qubx.dataGTK.QubDataView_Hi.
  • qubx.fast.data.MeanRSS
  • qubx.fast.model.Model
  • qubx_mac.rates.ModelGroup
  • qubx.hill.ModelTracker: Follows the frontmost qubx.model.QubModel and qubx.modelGTK.ModelView, with events when anything changes.
  • qubx_about_plug.qubx_plugin.ModelTracker: Follows the frontmost qubx.model.QubModel and qubx.modelGTK.ModelView, with events when anything changes.
  • qubx_mac.qubx_plugin.ModelTracker: Follows the frontmost qubx.model.QubModel and qubx.modelGTK.ModelView, with events when anything changes.
  • qubx_macro_r.qubx_plugin.ModelTracker: Follows the frontmost qubx.model.QubModel and qubx.modelGTK.ModelView, with events when anything changes.
  • qubx_testing.qubx_plugin.ModelTracker: Follows the frontmost qubx.model.QubModel and qubx.modelGTK.ModelView, with events when anything changes.
  • qubx.spectrum.MovingWindowSpectrum
  • qubx.fast.model.MultiModel
  • qubx.notebook.NbController: The global instance of this type, qubx.notebook.Notebook, is created by qubx.notebook.Init(), and keeps registries of the various output methods (NbTargets) and automatically-triggered NbItems.
  • qubx.notebook.NbTarget: Base class for objects which receive notebook items.
    • qubx.notebook_qtiplot.NbTarget_QtiPlot
    • qubx.notebook_scidavis.NbTarget_SciDAVis
  • qubx.notebookGTK.NbTarget_Clipboard
  • qubx.notebookGTK.NbTarget_HTML
  • qubx.notebookGTK.NbTarget_SaveAs
  • qubx.notebook.NbTarget_Stdout: Basic type of notebook output which prints everything to the stdout console.
  • qubx.tree_native.Node
  • qubx.tree.NodeFile: Manages a memory-mapped qubtree file, either on disk or an anonymous buffer.
  • qubx.tree.NodeFile_NoMap: Manages a non-memory-mapped qubtree file on disk.
  • qubx.tree.NodeStorage: Abstract base class for managing a concrete representation of one qubtree node.
    • qubx.tree.NodeInFile: Manages the attributes and data of a Node inside a NodeFile.
    • qubx.tree.NodeInFile_NoMap: Manages the attributes and data of a Node inside a NodeFile_NoMap.
    • qubx.tree.NodeInMem: Manages the attributes and data of a Node that's not in a file.
  • qubx.tree.Node_numpy: Represents the (sub-)tree under a particular node in a qub tree, in an open file or in memory.
  • qubx.tree.Node_numpy_NoMap: Represents the (sub-)tree under a particular node in a qub tree.
  • qubx.notebookGTK.Notebook_Table_Extensions
  • qubx.tree.NullData: Represents the data of a null node, which is empty and will stay empty.
  • qubx.tree.NullNode_numpy: Represents the absence of a qubtree node.
  • qubx.accept.ODEAcceptor
  • qubx.toolspace.Overlay_Tooltip: Draws a tool-tip on a ToolSpace.
  • qubx.pyenv.PluginManager
  • qubx.faces.PopInfo: Represents the embedded or windowed state of a Face inside ToolsFace or ToolsToggleFace.
  • qubx.faces.PopPrefs: Manages global, persistent state for all containers' pop-out states.
  • qubx.util_types.Product
  • qubx.settings.PropertiedBase
    • qubx.hist.AmpHistFace: Panel showing the all-points amplitude histogram of one signal.
    • qubx.idealize.BaumWelchIdealizer
    • qubx.stimulus.ByDeltaARIdealizer
    • qubx.stimulus.ByDeltaIdealizer
    • qubx.modeling_utils.ChainFace
    • qubx.chop.ChopDialog
    • qubx.modeling_utils.ClassifyFace
    • qubx.data_panel.DataFace: Panel displaying one of possibly several open data files.
    • qubx.simulate.DoseResp_Ladder_Wizard
    • qubx.dataGTK.DoseResponse_Properties
    • qubx_single.dur_hist.DurHistFace
    • qubx.extract.ExtractFace
    • qubx_single.idealize.Idealizers
    • qubx.idealize.IdlFace: Hosts idealization methods, many from qubx_single_molecule plugin.
    • qubx.ideal_tools.IdlToolsFace
    • qubx.kalman.KalmanFace
    • qubx.list_average.ListAverageFace: Panel showing live average of front List.
    • qubx.list_figure.ListFigureFace: Panel which generates high-quality figures from the selection list.
    • qubx_idl_mdl.idealizer.MDLIdealizer
    • qubx.modelGTK.ModelNbPicturePrefs
    • qubx.modeling_utils.ModelSearchFace
    • qubx.notebookGTK.NotebookFace
    • qubx.simulate.PairedPulse_Wizard
    • qubx.modeling_utils.PerturbFace
    • qubx.settingsGTK.PropertiedDialog: Edits a settings category, with OK, Cancel, Presets.
    • qubx_mac.rates.RatesFace: Calculates log-likelihood and optimizes model parameters, a la Milescu 2005.
    • qubx_macro_r.rates.RatesFace: Calculates log-likelihood and optimizes model parameters, a la Moffatt 2007.
    • qubx_single.rates.RatesFace
    • qubx.idealize.SKMIdealizer
    • qubx.util_panels.SettingsFace: Panel to manage qubx.toolspace.Appearance and other active qubx.settings.
    • qubx.simulate.SimNoiseDialog
    • qubx.spectrum.SpectrumFace
    • qubx.modeling_utils.StarFace
  • qubx.settings.Property
  • qubx.pyenv.PythonEnvironment: Python environment management for user scripting.
  • qubx.data_types.QubData: Base class for an open data file.
    • qubx.data_abf.QubData_ABF: One open Axon binary file.
    • qubx.data_acquire.QubData_ACQ: One open Aquire data file.
    • qubx.data_types.QubData_Bin: One open raw binary data file.
    • qubx.data_types.QubData_Blank
    • qubx.data_gpatch.QubData_GPatch: One open GPATCH dat file.
    • qubx.data_types.QubData_LDT: One open LDT file (classic QuB data)
    • qubx.data_pulse.QubData_PUL: One open Patchmaster file.
    • qubx.data_types.QubData_QDF: One open QDF (or QSF) data file.
    • qubx.data_types.QubData_Scratch: One open qub express scratch file (simulation); .tree can be repeatedly re-assigned.
  • qubx.data_types.QubData_Analog: Base class for one analog signal.
    • qubx.data_abf.QubData_ABF_Signal
      • qubx.data_abf.QubData_ABF_Analog
      • qubx.data_abf.QubData_ABF_Waveform
    • qubx.data_acquire.QubData_ACQ_Analog
    • qubx.data_types.QubData_Analog_Computed
    • qubx.data_types.QubData_Bin_Analog
    • qubx.data_gpatch.QubData_Gpatch_Analog
    • qubx.data_types.QubData_LDT_Analog
    • qubx.data_pulse.QubData_PUL_Signal
      • qubx.data_pulse.QubData_PUL_Analog
    • qubx.data_types.QubData_QDF_Analog
    • qubx.data_types.QubData_Scratch_Analog: Reads data from a qub express scratch file (simulation).
  • qubx.model.QubModel: Hidden Markov model, e.g.
  • qubx.maths.RandomNormalsSmallN: Generates batches of gaussian random numbers, mean 0, std 1.
  • qubx.model.RandomNormalsSmallN: Generates batches of gaussian data; mean 0, std 1.
  • qubx.util_types.Reffer: Holds references to keep objects alive.
  • qubx.remote_ctl.RemoteController
  • qubx.remote_ctl.RemoteMsg: Represents one message with associated data.
  • qubx.remote_ctl.RemoteRunner: Manages servant sockets, wraps with RemoteSessions; you call .process_one() to get their work done.
  • qubx.GTK.Requestable: Defines a resource which is calculated when needed and cached until invalidated; it may take a long time to calculate, so request is asynchronous -- you provide a receiver callback, which is called by gobject some time later.
    • qubx_single.rates.MultiplexedSignals
    • qubx_about_plug.qubx_plugin.OptToolData: Caches last-used data until changed.
    • qubx_mac.qubx_plugin.OptToolData: Caches last-used data until changed.
    • qubx_macro_r.qubx_plugin.OptToolData: Caches last-used data until changed.
    • qubx_testing.qubx_plugin.OptToolData: Caches last-used data until changed.
    • qubx_single.dur_hist.SinglePlex
    • qubx_single.dur_hist.SingleSignals
  • qubx.task.Robot_Hold: Context manager, for use in a Task thread, which pauses a Robot (or Robots) thread while it is entered.
  • qubx.toolspace.RotRect: Represents a rectangle that has been rotated theta radians about (x0, y0).
  • qubx.maths.RunningMean: Accumulates the approximate mean and standard deviation of a partial dataset.
  • qubx.maths.SampledGaussian
  • qubx.pyenv.ScriptModule
  • qubx.data_types.Segmentation: Describes how a contiguous range of samples is divided into segments.
  • qubx.data_types.SelectionLists
  • qubx.settings.Settings: The settings for one category.
  • qubx.settings.SettingsManager: Manager for all categories of settings.
  • qubx.data_types.SigBaseline: Represents piecewise-linear baseline of one signal.
  • qubx.data_types.SigIdl: Represents one idealized signal; resizes with Segmentation; stores per-segment info.
    • qubx.data_types.Exclusion: Represents excluded and included regions as an idealization with class 0 and 1 resp.
    • qubx.data_types.SigOverlays
  • qubx.simulate.SimProtoDataSignal
  • qubx.simulate.SimuFiles: Provides a rotating collection of "scratch" trees for simulated data.
  • qubx.singleInstance.SingleInstance: SingleInstance(port)
  • qubx.sock.Socket: Socket(host, port, async=True)
    • qubx.remote_ctl.RemoteConnect: Reads and writes RemoteMsgs.
      • qubx.remote_ctl.RemoteSession: Handles the server side of one connection.
  • qubx.sorted_collection.SortedCollection: Sequence sorted by a key function.
  • qubx.express.StdNull
  • qubx.fitness.StdNull
  • qubx.fast.model.StimAmps
  • qubx.fast.model.StimRates
  • qubx.stimulus.StimSource
    • qubx.stimulus.Shaper
      • qubx.stimulus.Shaper_ODE
    • qubx.stimulus.StimSource_Expr
    • qubx.stimulus.StimSource_Signal
    • qubx.stimulus.StimSource_Time
  • qubx.tree_native.Storage
  • qubx.fit_robot.Strategy: Strategy module_name: for pyenv run_later: facility for deferred execution such as gobject.idle_add
  • qubx.fit_robots.Strategy: Strategy module_name: for pyenv run_later: facility for deferred execution such as gobject.idle_add
  • qubx.toolspace.SubLayer: A specific display element or control on a Layer in a ToolSpace.
    • qubx.toolspace.SubLayer_Check: A box that is active or not; click to toggle.
    • qubx.fit_space.SubLayer_Correl: Displays a square matrix that has all entries -1 <= x <= 1, as a square subdivided into squares of color; see ScaleToColor.
    • qubx.fit_space.SubLayer_CorrelSquare: Displays one square from a matrix that has all entries -1 <= x <= 1, as a color and number; see ScaleToColor.
    • qubx.toolspace.SubLayer_DropDown: A combo-box in the style of csDropDownList (enumerated choices only).
    • qubx.toolspace.SubLayer_Icon: A little icon suitable for Layer_Toolbar.
      • qubx.toolspace.SubLayer_Arrow: An arrow.
      • qubx.dataGTK.SubLayer_DisplayMenu: Display menu.
      • qubx.toolspace.SubLayer_Eraser: An eraser icon.
      • qubx.fit_space.SubLayer_FitIcon
      • qubx.toolspace.SubLayer_PanIcon
      • qubx.faces.SubLayer_PopIcon: Toggle graphic for pop-out/-in of sub-Face; shown in tabs of ToolsFace, ToolsToggleFace.
      • qubx.toolspace.SubLayer_Ruler: A little yellow ruler icon.
      • qubx.select_charts.SubLayer_SelectIcon
      • qubx.toolspace.SubLayer_Stamp: A rubber stamp icon.
    • qubx.toolspace.SubLayer_Label: Displays a string of text.
      • qubx.toolspace.SubLayer_Mag: Draws a magnifying glass under the label.
      • qubx.toolspace.SubLayer_Radio: Label with radio button behavior.
      • qubx.toolspace.SubLayer_SmoothZoom
    • qubx.dataGTK.SubLayer_List
    • qubx.toolspace.SubLayer_MenuLines: A collection of horizontal lines, which shows a menu when clicked.
    • qubx.toolspace.SubLayer_PNG
      • qubx.toolspace.SubLayer_Popup_PNG
    • qubx.toolspace.SubLayer_Popup: A circle with inscribed triangle, which shows a menu when clicked.
      • qubx.notebookGTK.SubLayer_Notebook: A notebook icon, which shows a menu when clicked.
    • qubx.toolspace.SubLayer_Progress: Progress bar, from 0 to 100.
    • qubx.toolspace.SubLayer_Range: A slightly nonstandard scroll bar; grab the left or right edge to resize the thumb.
    • qubx.toolspace.SubLayer_UpDown: The little up and down buttons, such as next to a number.
  • qubx.sock.TCPServer: Listens for connections on its own thread; calls session_f(each new socket.socket).
    • qubx.remote_ctl.RemoteCommandServer: Listens on the first available port in port..(port+seek_ports).
    • qubx.remote_ctl.RemoteServer: Listens on the first available port in port..(port+seek_ports).
  • qubx.tifffile.TIFF_SUBFILE_TYPES
  • qubx.toolspace.TS_Appearance: Holds color and font preferences.
  • qubx.toolspace.TS_Color: Represents one named color.
  • qubx.table.Table: Base class for info that can be represented as a table.
    • qubx.table.ObjectTable: Implements Table as a list of pre-existing objects.
      • qubx.data_types.QubDatas: A table-like collection of open files.
      • qubx.model.QubModels: Table-like collection of open model files.
    • qubx.table.SimpleTable: Implements Table by storing all rows and fields internally.
      • qubx.model.ConstraintsKinTable
      • qubx.data_types.SelectionList
      • qubx.trialset.TrialSet: A table with one model per row (in qubx.tree QMF format); each row represents one result such as an optimizer run.
  • qubx.table.TableUndo: Binds a Table to a qubx.undo.UndoStack.
  • qubx.task.Task: A worker thread; not started until .start().
    • qubx_testing.calcserv.CalcTask
    • qubx.modeling_utils.ClassifyTask
    • qubx.crash_rep.CrashReportTask
    • qubx.dataGTK.DoseResponse_Task
    • qubx_testing.i_over_var.IoverVar_Task
    • qubx.kalman.KalmanTask
    • qubx.modeling_utils.ModelSearchTask
    • qubx.modeling_utils.PerturbTask
    • qubx.task.PoolTask: A worker thread which controls a multiprocessing.Pool of worker processes.
      • qubx.task.Robots: A worker thread with a pool of worker processes, servicing a queue of callables.
        • qubx.fit_robots.FitRobots: Background thread with multiprocessing.pool to operate qubx.fit.
    • qubx.task.Robot: A worker thread which services a queue of callables.
      • qubx.fit_robot.FitRobot: Background thread to operate qubx.fit.
    • qubx.util_panels.ScriptProxyTask: Represents a running script, in order to show progress and status and allow user to stop and pause (first click on "Stop" pauses it, next click permanently stops it).
    • qubx.ideal_tools.StabilityTask
    • qubx.modeling_utils.StyledBuildTask
    • qubx.vcheck_client.vcheck_client_task: Checks for updates in a background thread, prompts the user.
  • qubx.task.TaskManager: Maintains a list of running tasks; can interrupt one or all; use global variable Tasks."
  • qubx.data_types.TextStats
  • qubx.table.TextStats
  • qubx.GTK.TextViewAppender: File-like object which appends to a gtk.TextView, optionally formatted, and scrolls to the end.
  • qubx.tifffile.TiffFile: Read image and meta-data from TIFF, STK, LSM, and FluoView files.
  • qubx.tifffile.TiffPage: A TIFF image file directory (IFD).
  • qubx.tifffile.TiffSequence: Sequence of image files.
  • qubx.tifffile.TiffTag: A TIFF tag structure.
  • qubx.dataGTK.TileCache
  • qubx.toolspace.Tool: Receives mouse events from a ToolSpace.
    • qubx.fit_space.BaseFitSpaceCursor: Tracks mouse coordinates in a FitSpace.
      • qubx.fit_space.FitSpaceCursor
        • qubx.select_charts.SelectCursor
        • qubx.select_charts.XMeansCursor
      • qubx.fit_space.FitSpaceModalCursor
    • qubx.toolspace.OverlayRgnTool: Base class for a Tool which defines RotRect regions of interest.
      • qubx.toolspace.OverlayRgnCaptionedTool: Base class for a Tool which presents a message and highlights regions of interest.
        • qubx.modelGTK.QubModelLoopTool: Mouse interaction and overlay while picking rates around a loop.
        • qubx.modelGTK.QubModelScaleTool: Mouse interaction and overlay while picking a rate to complete a Scale constraint.
      • qubx.modelGTK.QubModelColorTool: Mouse interaction and overlay while picking a state's color.
      • qubx.modelGTK.QubModelConnectTool: Mouse interaction and overlay while drawing a connection between states.
      • qubx.toolspace.Tool_DropDown: Displays a drop-down menu (from SubLayer_DropDown) and handles mouse clicks.
    • qubx.dataGTK.QubData_BaseTool
      • qubx.dataGTK.QubData_HiTool
        • qubx.dataGTK.QubData_BaselineTool: Edits baseline nodes; draws them as an overlay.
        • qubx.dataGTK.QubData_PanTool
        • qubx.dataGTK.QubData_SelTool: Handles mouse interactions that involve highlighting a region of data and acting immediately.
          • qubx.modelGTK.GrabTool: As qubx.dataGTK.QubDataView.tool, lets user highlight data to initialize class Amp/Std/Cond/CondStd.
          • qubx.dataGTK.QubData_BaumWelchTool
          • qubx.dataGTK.QubData_CloneTool
          • qubx.dataGTK.QubData_ExcludeTool
          • qubx.dataGTK.QubData_JoinTool
          • qubx.dataGTK.QubData_ListReplaceTool
          • qubx.dataGTK.QubData_MeasureTool
    • qubx.modelGTK.QubModelDefaultTool: Basic mouse interaction for QubModelView.
    • qubx.dataGTK.ShowMeasurementsTool
    • qubx.simulate.SimProtoPicker: Mouse interactions for SimProtoChannel.
    • qubx.toolspace.Spotlight: Demo tool to shine a spotlight on a ToolSpace.
  • qubx.util_types.ToolRegistry: A collection of tools or actions, grouped by category.
  • qubx.trialset.TrialSets: Collection of TrialSet by name.
  • qubx.trials.Trials
  • qubx.undo.UndoStack: Stack of undo and redo actions.
  • qubx.util_types.WeakCall: Like WeakEvent, except there's at most one listener, and it can return a value.
  • qubx.util_types.WeakEvent: Usage:
  • unreachable._CData: XXX to be provided
    • _ctypes.Structure: Structure base class
      • qubx.fast.baseline.BaselineNodeRec
      • qubx.fast.baseline.BaselineSegRec
      • ctypes._endian.BigEndianStructure: Structure with big endian byte order
        • qubx.data_pulse.S
          • qubx.data_pulse.BundleHeader
          • qubx.data_pulse.BundleItem
          • qubx.data_pulse.GroupRecord: A GroupRecord describes a group of series, such as patch and whole cell currents obtained simultanuously, or groups of series obtained in sequence under different sets of conditions
          • qubx.data_pulse.Header
          • qubx.data_pulse.LevelFooter
          • qubx.data_pulse.RootRecord
          • qubx.data_pulse.SeriesRecord
          • qubx.data_pulse.StimChannelRecord
          • qubx.data_pulse.StimRootRecord
          • qubx.data_pulse.StimSegmentRecord
          • qubx.data_pulse.StimulationRecord
          • qubx.data_pulse.SweepRecord
          • qubx.data_pulse.TraceRecord
          • qubx.data_pulse.UserParamDescrType
      • qubx.fast.model.ConstrainedStruct
      • qubx.data_gpatch.GPatchMSweep
      • qubx.data_gpatch.GPatchWSweep
      • qubx.fast.kalman.KalmanConst
      • qubx.fast.kalman.KalmanState
      • qubx.fast.model.ModelStruct
      • qubx.fast.model.MultiModelStruct
      • qubx.tree_native.NodeStruct
      • qubx.fast.model.StimAmpsStruct
      • qubx.fast.model.StimRatesStruct
    • _ctypes._Pointer: XXX to be provided
      • qubx.fast.baseline.PBaselineNode
      • qubx.fast.baseline.PBaselineSeg
      • qubx.fast.model.PConstrained
      • qubx.fast.kalman.PKalmanConst
      • qubx.fast.kalman.PKalmanState
      • qubx.fast.model.PModel
      • qubx.fast.model.PMultiModel
      • qubx.tree_native.PNode
      • qubx.fast.baseline.PPBaselineNode
      • qubx.fast.model.PStimAmps
      • qubx.fast.model.PStimRates
      • qubx.fast.fast_utils.c_double_p
      • qubx.fast.fast_utils.c_double_pp
      • qubx.fast.fast_utils.c_double_ppp
      • qubx.fast.fast_utils.c_float_p
      • qubx.fast.fast_utils.c_float_pp
      • qubx.fast.fast_utils.c_float_ppp
      • qubx.fast.fast_utils.c_int_p
      • qubx.fast.fast_utils.c_int_pp
      • qubx.fast.fast_utils.c_int_ppp
      • qubx.fast.fast_utils.c_long_p
      • qubx.fast.fast_utils.c_short_p
      • qubx.fast.fast_utils.c_size_t_p
      • qubx.ideal.c_uint_p
    • _ctypes._SimpleCData: XXX to be provided
      • ctypes.c_double.__ctype_be__
      • ctypes.c_float.__ctype_be__
      • ctypes.c_int.__ctype_be__
      • ctypes.c_long.__ctype_be__
      • ctypes.c_short.__ctype_be__
      • ctypes.c_uint.__ctype_be__
      • ctypes.c_ulong.__ctype_be__
      • ctypes.c_double
      • ctypes.c_float
      • ctypes.c_int
      • ctypes.c_long
      • ctypes.c_short
      • ctypes.c_uint
      • ctypes.c_ulong
  • basestring: Type basestring cannot be instantiated; it is the base for str and unicode.
    • str: str(object='') -> string
  • dict: dict() -> new empty dictionary dict(mapping) -> new dictionary initialized from a mapping object's (key, value) pairs dict(iterable) -> new dictionary initialized as if via: d = {} for k, v in iterable: d[k] = v dict(**kwargs) -> new dictionary initialized with the name=value pairs in the keyword argument list.
    • qubx.util_types.OverridingDict: "Overrides" the base dict so keys are looked up first here, then if not found, in base dict.
    • qubx.settings.PropertyStorage
    • qubx.tifffile.Record: Dictionary with attribute access.
      • qubx.tifffile.TiffTags: Dictionary of TiffTags with attribute access.
  • qubx.tree.dtree: A light intermediary between a file and a reader of qubtree nodes, for debugging.
  • qubx.tifffile.lazyattr: Lazy object attribute whose value is computed on first access.
  • list: list() -> new empty list list(iterable) -> new list initialized from iterable's items
    • qubx.data_pulse.TreeLevel
  • type: type(object) -> the object's type type(name, bases, dict) -> a new type
    • unreachable.PyCStructType: metatype for the CData Objects
      • ctypes._endian._swapped_meta