Class Hierarchy

Go to the graphical class hierarchy

This inheritance list is sorted roughly, but not completely, alphabetically:

[detail level 12345]

►CSimPT_Sim::ClockMan::ClockTraits< std::chrono::system_clock, typename std::chrono::system_clock::duration >
►CSimPT_Sim::ClockMan::Timeable<>
CSimPT_Shell::CliController	Command line interface application controller
CSimPT_Shell::CoupledCliController	Command line interface application controller
►CSimPT_Sim::SimInterface	Simulator interface
CSimPT_Sim::CoupledSim	Coupled Simulator: multiple simulators and couplers
CSimPT_Sim::Sim	Simulator: mesh & parameters, model & algorithms
CSimShell::Gui::Controller::AppController	Main window of GUI
CSimShell::Gui::Controller::ProjectController	Project controller
►CSimShell::Session::ISession	Generic session interface
►CSimPT_Shell::Session::ISimSession	Interface for handling an opened/running simulation
CSimPT_Shell::Session::SimSession	Collection of instances associated with an opened/running project
CSimPT_Shell::Session::SimSessionCoupled	Collection of instances associated with an opened/running coupled project
►Cstd::enable_shared_from_this< CoupledSim >
CSimPT_Sim::CoupledSim	Coupled Simulator: multiple simulators and couplers
►Cstd::enable_shared_from_this< MergedPreferences >
CSimShell::Ws::MergedPreferences	Wrapper around workspace to have read and write access to merged (workspace + project) preferences
►Cstd::enable_shared_from_this< Sim >
CSimPT_Sim::Sim	Simulator: mesh & parameters, model & algorithms
►Cstd::enable_shared_from_this< SimSession >
CSimPT_Shell::Session::SimSession	Collection of instances associated with an opened/running project
►Cstd::enable_shared_from_this< ViewerNode< ViewerType, SubjectType > >
CSimShell::Viewer::ViewerNode< ViewerType, SubjectType >	Template implementing a node in a hierarchical tree of viewers.Parameters:
►Cstd::enable_shared_from_this< WorkspaceQtModel >
CSimShell::Gui::WorkspaceQtModel	Abstraction of workspace on the filesystem
►CSimPT_Shell::FileViewer< Hdf5File >
CSimPT_Shell::Hdf5Viewer	Class definition for Hdf5Viewer
►CSimPT_Sim::Util::FunctionMap< OdeintTraits<>::Solver()>
CSimPT_Sim::OdeintFactories0Map	Stores factory functions for odeint integrator
►CSimPT_Sim::Util::FunctionMap< OdeintTraits<>::Solver(double &, double &)>
CSimPT_Sim::OdeintFactories2Map	Stores factory functions for odeint integrator algorithm
►CSimPT_Sim::Util::FunctionMap< std::shared_ptr< ICoupler >()>
CSimPT_Sim::CouplerFactories	A coupler factory map that is used to register names for these couplers
►Cstd::iterator< std::bidirectional_iterator_tag, V, T::difference_type, P, R >
CSimPT_Sim::Container::Impl_::CircularIterator< T, V, P, R >	Implementation of a circular iterator
►Cstd::iterator< std::random_access_iterator_tag, T, std::ptrdiff_t, P, R >
CSimPT_Sim::Container::SVIterator< T, N, P, R, is_const_iterator >	Implementation of iterator for SegmentedVector
CModes::ModeManager< parex >
CModes::ModeManager< sim >
CModes::ModeManager< executable_type >	Factory produces functions that start the different modes of the various executables
CModes::ParexClientMode	Mode for executing a parameter exploration client
CModes::ParexNodeMode	Mode for executing a parameter exploration node
CModes::ParexServerMode	Mode for executing a parameter exploration server
CModes::simPTCLIMode	For executing the simulator in CLI mode
CModes::simPTGUIMode	For executing the simulator in GUI mode
►CPreferencesType
CSimPT_Shell::PreferencesObserver< PreferencesType >	Listener for SimShell::Event::MergedPreferencesChanged events
►CQAbstractItemModel	See the online Qt documentation
CSimShell::Gui::CheckableTreeModel	A hierarchical tree-like model of checkable items
CSimShell::Gui::PTreeModel	Qt model reflecting hierarchical structure of a ptree
CSimShell::Gui::WorkspaceQtModel	Abstraction of workspace on the filesystem
►CQDialog	See the online Qt documentation
CSimPT_Editor::BackgroundDialog	Dialog for setting the background image
CSimPT_Editor::CopyAttributesDialog	Dialog for selecting the attributes we want to copy
CSimPT_Editor::RegularGeneratorDialog	Dialog for generating regular patterns in a cell
CSimPT_Editor::VoronoiGeneratorDialog	Dialog for generating patterns in a cell using Voronoi tessellation
CSimPT_Parex::ExplorationSelection	Dialog for selecting explorations
CSimPT_Parex::ServerDialog	Dialog for connecting to server
CSimPT_Shell::ConverterWindow	Main widget class for the graphical user interface of the converter
CSimShell::Gui::MyFindDialog	Dialog window for searching strings
CSimShell::Gui::NewProjectDialog	Dialog that asks user about information for setting up a new project
CSimShell::Gui::SaveChangesDialog	Dialog window that displays a tree of objects containing unsaved changes
►CQDockWidget	See the online Qt documentation
CSimShell::Gui::LogWindow	A viewer that displays sim events in a log in a dock window
CSimShell::Gui::MyDockWidget	QDockWidget with methods to import/export widget layout (x,y,width, ...) in ptree format
CSimShell::Gui::ViewerDockWidget	A dock widget containing visual output of a viewer
►CQGraphicsEllipseItem	See the online Qt documentation
CSimPT_Editor::EditableNodeItem	Editable graphical representation for Node
►CQGraphicsItem	See the online Qt documentation
CSimPT_Shell::NodeItem	Graphic wrapper for Node
►CQGraphicsItemGroup	See the online Qt documentation
CSimPT_Editor::RegularTiling	Class of a cell tiling with regular polygons
►CQGraphicsLineItem	See the online Qt documentation
CSimPT_Editor::EditableEdgeItem	Editable graphical representation for Edge
CSimPT_Shell::ArrowItem	Arrow composed and drawn with Qt primitives
►CQGraphicsPathItem	See the online Qt documentation
►CSimPT_Editor::Tile	Abstract base class for cell pattern tiles
CSimPT_Editor::DiamondTile	A diamond shaped tile
CSimPT_Editor::HexagonalTile	A hexagonal tile
CSimPT_Editor::RectangularTile	A rectangular tile
CSimPT_Editor::TriangularTile	A triangular tile
►CQGraphicsPolygonItem	See the online Qt documentation
CSimPT_Editor::EditableCellItem	Editable graphical representation for Cell
CSimPT_Editor::SliceItem	Represents a slice of a cell complex
CSimPT_Editor::VoronoiTesselation	Graphics item for Voronoi tesselation of a polygon
CSimPT_Shell::WallItem	WallItem shows transporter concentrations at one side of the wall
►CQGraphicsView	See the online Qt documentation
CSimShell::Gui::MyGraphicsView	Scrollable QGraphicsView with zoom functionality
►CSimShell::Gui::PanAndZoomView	QGraphicsView with the ability to pan and zoom
CSimPT_Editor::TissueGraphicsView	The graphical view on the tissue
►CQMainWindow	See the online Qt documentation
CSimPT_Editor::TissueEditor	Main GUI class for cell editor
CSimPT_Parex::Client	Client for Parameter Exploration
CSimPT_Shell::Gui::PTreeEditor	Stand-alone Property Tree editor
CSimShell::Gui::Controller::AppController	Main window of GUI
CSimShell::Gui::PTreeEditorWindow	Small editor widget for a Boost Property Tree object
►CSimShell::Gui::ViewerWindow	A window containing visual output of a viewer
CSimPT_Shell::QtViewer	Graphical viewer showing the mesh at a certain simulation step
►CQMenu	See the online Qt documentation
CSimShell::Gui::PTreeMenu	A menu reflecting the structure of a ptree
►CQMenuBar	See the online Qt documentation
CSimPT_Editor::EditorActions	The actions in the menu bar of the workspace
►CQObject	See the online Qt documentation
►CSimPT_Editor::EditableItem	Interface for an editable graphical representation
CSimPT_Editor::EditableCellItem	Editable graphical representation for Cell
CSimPT_Editor::EditableEdgeItem	Editable graphical representation for Edge
CSimPT_Editor::EditableNodeItem	Editable graphical representation for Node
CSimPT_Editor::EditControlLogic	Class for the composition of a tissue, containing its properties
CSimPT_Editor::SliceItem	Represents a slice of a cell complex
CSimPT_Editor::TissueSlicer	Functionality and visual representation of slicing a cell complex
CSimPT_Parex::ClientHandler	Connection from the server to one client, handles client messages and requests
CSimPT_Parex::Connection	Class managing a TCP stream of messages
CSimPT_Parex::ExplorationManager	Collects all explorations and works with WorkerPool to actually execute them
CSimPT_Parex::ExplorationProgress	Class describing the progress state of an exploration
CSimPT_Parex::NodeAdvertiser	Class advertising an available node over the network
►CSimPT_Parex::Protocol	Base class for the XML/ptree protocols between client, server and node
CSimPT_Parex::ClientProtocol	Client side of the protocol
CSimPT_Parex::NodeProtocol	Class that implements the node version of the protocol
CSimPT_Parex::ServerClientProtocol	ServerClient Protocol to deal with Client-Server communication (Server-side)
CSimPT_Parex::ServerNodeProtocol	Protocol at the server side to communicate with the node
CSimPT_Parex::SimTask	Contains all information needed for a transmitable simulation task
CSimPT_Parex::Simulator	Simulator handling requested simulation tasks
CSimPT_Parex::WorkerPool	A pool handling the workers that will do the actual work
CSimPT_Parex::WorkerRepresentative	A worker taken as representative for multiple workers (handles the communication with the node)
CSimPT_Shell::CliController	Command line interface application controller
CSimPT_Shell::CoupledCliController	Command line interface application controller
CSimPT_Shell::Session::SimWorker	Utility for running simulation in a separate thread
CSimPT_Shell::Ws::Util::Compressor	Compression / decompression actions
CSimShell::Gui::ProjectActions::ExportActions	For a given Session::ISession::ExportersType instance, generates a list of actions that will trigger file "Export" to happen
CSimShell::Gui::ProjectActions::ViewerActions	Given a so-called 'root' viewer instance, constructs a menu representing the hierarchical structure of viewers
CSimShell::Session::ISession	Generic session interface
CSimShell::Ws::Util::FileSystemWatcher	Utility class for being informed about changes to a file/directory on the filesystem
►CQSortFilterProxyModel	See the online Qt documentation
CSimPT_Shell::StepFilterProxyModel	Custom proxy model to filter a QStandardModel with file names with time steps
►CQTcpServer	See the online Qt documentation
CSimPT_Parex::Server	Server class accepting TCP connections and setting up the server structures
CSimPT_Parex::WorkerNode	Broadcasts location on the network, then listens to incoming connections
►CQTreeView	See the online Qt documentation
►CSimShell::Gui::MyTreeView	QTreeView with methods to import/export widget layout (x,y,width, ...) in ptree format
CSimShell::Gui::PTreeView	TreeView widget that presents an editable ptree to the user
CSimShell::Gui::WorkspaceView	TreeView widget that uses WorkspaceQtModel as a model
►CQUndoCommand	See the online Qt documentation
CSimShell::Gui::PTreeModel::EditDataCommand	Undo command that represents a single edit operation for a data value of PTreeModel
CSimShell::Gui::PTreeModel::EditKeyCommand	Undo command that represents a single edit operation for a key value of PTreeModel
CSimShell::Gui::PTreeModel::InsertRowsCommand	Undo command that represents a single insertion operation of rows into a PTreeModel
CSimShell::Gui::PTreeModel::MoveRowsCommand	Undo command that represents a single move operation of rows inside a PTreeModel
CSimShell::Gui::PTreeModel::RemoveRowsCommand	Undo command that represents a single removal operation of rows from a PTreeModel
►CQWidget	See the online Qt documentation
CSimPT_Editor::PTreePanels	Manages the attribute and geometric ptree panel for a given tissue
CSimPT_Editor::SelectByIDWidget	Class for selecting an item by ID
CSimPT_Editor::TransformationWidget	Qt GUI to enter a transformation of an item
CSimPT_Parex::Status	Widget to display status of subscribed exploration
CSimPT_Parex::TaskOverview	Overview of tasks
CSimPT_Shell::ConversionList	Widget containing the list of steps in conversion and associated functionality
CSimShell::Gui::Controller::ProjectController	Project controller
CSimShell::Gui::Controller::SessionController	Simple state machine with 3 states: "disabled", "enabled-not-running" and "enabled-running"
CSimShell::Gui::Controller::WorkspaceController	Controller for workspace
►CSimShell::Gui::PTreeContainer	For a given ptree, constructs PTreeMenu, QDockWidget, PTreeEditorWindow
CSimShell::Gui::PTreeContainerPreferencesObserver	PTreeContainer meant for displaying/editing preferences ptrees that can also be modified elsewhere in the code
►CQWizard	See the online Qt documentation
CSimPT_Parex::ExplorationWizard	Wizard to set up an exploration
CSimShell::Gui::WorkspaceWizard	A wizard that assists the user either specifying an existing workspace, or creating a new workspace
►CQWizardPage	See the online Qt documentation
CSimPT_Parex::FilesPage	Page to allow file selection
CSimPT_Parex::ParamPage	Set the parameters for the exploration
CSimPT_Parex::PathPage	Select the sim data input file
CSimPT_Parex::SendPage	Give a name for the exploration and send the exploration
CSimPT_Parex::StartPage	Select type of new exploration
CSimPT_Parex::TemplateFilePage	Select the input template data file
CSimShell::Gui::WorkspaceWizard::DonePage
CSimShell::Gui::WorkspaceWizard::ExistingPage	Page shown when user specified an existing workspace
CSimShell::Gui::WorkspaceWizard::InitPage	Page shown when user specified a path that doesn't contain a workspace already
CSimShell::Gui::WorkspaceWizard::PathPage
CSimPT_Sim::Container::SegmentedVector< SimPT_Sim::Cell >
CSimPT_Sim::Container::SegmentedVector< SimPT_Sim::Node >
CSimPT_Sim::Container::SegmentedVector< SimPT_Sim::Wall >
CSimPT_Blad::CellChemistry::Blad	CellChemistry for Blad model
CSimPT_Blad::CellColor::Blad	Implements chemical dependent cell color for Blad
CSimPT_Blad::CellDaughters::Blad	CellDaughters component of Blad model
CSimPT_Blad::CellHousekeep::Blad	Cell housekeeping for Blad
CSimPT_Blad::CellSplit::Blad	CellSplit for Blad model
CSimPT_Blad::CellToCellTransport::Blad	Cell to cell reaction and transport for Blad model
CSimPT_Default::CellChemistry::AuxinGrowth	Implements AuxinGrowth cell chemistry
CSimPT_Default::CellChemistry::Meinhardt	Cell chemistry for Meinhardt model
CSimPT_Default::CellChemistry::NoOp	NoOp (do nothing) cell chemistry
CSimPT_Default::CellChemistry::PINFlux	Implements PINFlux model for cell chemistry
CSimPT_Default::CellChemistry::PINFlux2	Slightly different PINFlux model for cell chemistry
CSimPT_Default::CellChemistry::SmithPhyllotaxis	Implements cell chemistry of the phyllotaxis model due to Richard Smith et al
CSimPT_Default::CellChemistry::Source	CellChemistry for Source model
CSimPT_Default::CellChemistry::TestCoupling	CellChemistry component for the TestCoupling model
CSimPT_Default::CellChemistry::Wortel	CellChemistry for Wortel model
CSimPT_Default::CellChemistry::WrapperModel	CellChemistry for the Wrapper model
CSimPT_Default::CellColor::AuxinPIN1	Implements Auxin-PIN1 cell color, green for Auxin, red for PIN1
CSimPT_Default::CellColor::ChemBlue	Chemical dependent cell color (blue)
CSimPT_Default::CellColor::ChemGreen	Chemical dependent cell color (green)
CSimPT_Default::CellColor::Meinhardt	Meinhardt cell color scheme
CSimPT_Default::CellColor::SimplyRed	Implements simple cell color, red for chemicals 0 and 1
CSimPT_Default::CellColor::Size	Size-dependent cell color
CSimPT_Default::CellColor::TipGrowth	Implements simple cell color, red for chemicals 0 and 1
CSimPT_Default::CellColor::Wortel	Implements chemical dependent cell color for Wortel
CSimPT_Default::CellDaughters::Auxin	Implements Auxin division dynamics
CSimPT_Default::CellDaughters::BasicPIN	Implements PIN division dynamics
CSimPT_Default::CellDaughters::NoOp	Implements NoOp (do nothing) division dynamics
CSimPT_Default::CellDaughters::Perimeter	Implements perimeter closeness division dynamics
CSimPT_Default::CellDaughters::PIN	Implements PIN division dynamics
CSimPT_Default::CellDaughters::SmithPhyllotaxis	Implements Smith phyllotaxis division dynamics
CSimPT_Default::CellDaughters::Wortel	Implements root division dynamics
CSimPT_Default::CellDaughters::WrapperModel	Implements MaizeGRN division dynamics
CSimPT_Default::CellHousekeep::Auxin	Implements Auxin cell housekeeping
CSimPT_Default::CellHousekeep::AuxinGrowth	Cell housekeeping for auxin dependent growth
CSimPT_Default::CellHousekeep::BasicAuxin	Cell housekeeping for a basic auxin based model
CSimPT_Default::CellHousekeep::Geometric	Geometry based cell housekeeping
CSimPT_Default::CellHousekeep::Meinhardt	Cell housekeeping for the Meinhardt model
CSimPT_Default::CellHousekeep::NoOp	Implements NoOp (do nothing) cell housekeeping
CSimPT_Default::CellHousekeep::SmithPhyllotaxis	Implements Smith phyllotaxis cell housekeeping
CSimPT_Default::CellHousekeep::Wortel	Cell housekeeping for Wortel
CSimPT_Default::CellHousekeep::WrapperModel	CellHousekeep for Wrapper model
CSimPT_Default::CellSplit::AreaThresholdBased	Splitting of cells based on their area passing a predefined threshold
CSimPT_Default::CellSplit::AuxinGrowth	Cell splitting for auxin dependent growth
CSimPT_Default::CellSplit::Geometric	Geometry based cell splitting
CSimPT_Default::CellSplit::NoOp	Implements NoOp (do nothing) cell splitting
CSimPT_Default::CellSplit::Wortel	Implements Wortel cell splitting
CSimPT_Default::CellSplit::WrapperModel	Geometry based cell housekeeping
CSimPT_Default::CellToCellTransport::AuxinGrowth	Cell to cell transport for AuxinGrowth model
CSimPT_Default::CellToCellTransport::Basic	Basic plus source approach to cell2cell transport
CSimPT_Default::CellToCellTransport::Meinhardt	Cell to cell transport for Meinhardt model
CSimPT_Default::CellToCellTransport::NoOp	NoOp (do nothing) transport scheme
CSimPT_Default::CellToCellTransport::Plain	Implements a plain transport scheme
CSimPT_Default::CellToCellTransport::SmithPhyllotaxis	Cell to cell passive & active transport of IAA & PIN in the phyllotaxis model of Richard Smith
CSimPT_Default::CellToCellTransport::Source	Source based transport scheme
CSimPT_Default::CellToCellTransport::TestCoupling	CellToCellTransport component for the TestCoupling model
CSimPT_Default::CellToCellTransport::Wortel	Cell to cell transport for Wortel model
CSimPT_Default::CellToCellTransport::WrapperModel	Cell to cell transport for WrapperModel model
CSimPT_Default::CellToCellTransportBoundary::TestCoupling_I	CellToCellTransportBoundary component TestCoupling model
CSimPT_Default::CellToCellTransportBoundary::TestCoupling_II	CellToCellTransportBoundary component for the TestCoupling model
CSimPT_Default::DeltaHamiltonian::DHelper	Helper function for writing DeltaHamiltonians
CSimPT_Default::DeltaHamiltonian::ElasticWall	ElasticWall DeltaHamiltonian function
CSimPT_Default::DeltaHamiltonian::Maxwell	Maxwell DeltaHamiltonian function
CSimPT_Default::DeltaHamiltonian::ModifiedGC	ModifiedGC DeltaHamitonian function
CSimPT_Default::DeltaHamiltonian::PlainGC	PlainGC DeltaHamiltonian function
CSimPT_Default::Hamiltonian::ElasticWall	ElasticWall Hamiltonian function
CSimPT_Default::Hamiltonian::HHelper	Helper function for writing hamiltonians
CSimPT_Default::Hamiltonian::Maxwell	Maxwell Hamiltonian component
CSimPT_Default::Hamiltonian::ModifiedGC	ModifiedGC Hamiltonian function
CSimPT_Default::Hamiltonian::PlainGC	PlainGC Hamiltonian function
CSimPT_Default::MoveGenerator::DirectedNormal	Move Generator with normal distribution and directional bias
CSimPT_Default::MoveGenerator::DirectedUniform	Move Generator with uniform distribution and directional bias
CSimPT_Default::MoveGenerator::StandardNormal	Move Generator with normal distribution (no directional bias)
CSimPT_Default::MoveGenerator::StandardUniform	Move Generator with uniform distribution (no directional bias)
CSimPT_Default::WallChemistry::AuxinGrowth	Implements wall chemistry for the AuxinGrowth model
CSimPT_Default::WallChemistry::Basic	Basic approach with PINflux to wall chemistry
CSimPT_Default::WallChemistry::Meinhardt	Meinhardt version of wall chemistry
CSimPT_Default::WallChemistry::NoOp	NoOp (do nothing) approach to wall chemistry
CSimPT_Editor::EditableMesh	An editable mesh with actions to alter the construction of the mesh
CSimPT_Editor::PolygonUtils	Functions to manipulate polygons
CSimPT_Editor::UndoStack	Undo Stack for actions performed on a tissue
►CSimPT_Parex::Exploration	Class describing a generic exploration
CSimPT_Parex::FileExploration	Class describing a file-based exploration and its simulation tasks
CSimPT_Parex::ParameterExploration	Class describing a parameter exploration and its simulation tasks
CSimPT_Parex::ExplorationTask	Contains information about task in an exploration
►CSimPT_Parex::ISweep	An interface class for a parameter sweep
CSimPT_Parex::ListSweep	A sweep over a list of parameters
CSimPT_Parex::RangeSweep	A sweep over a range of numerical parameters
CSimPT_Parex::ServerInfo	Class for storing server info used on client-side
CSimPT_Parex::SimResult	A container class for the final result of a simulation
CSimPT_Shell::BitmapGraphicsExporter	Collection of functions and data concerning PNG export of Sim objects
CSimPT_Shell::CliConverterTask	A CliConverterTask represents an invocation of the converter from the command line
CSimPT_Shell::CliSimulationTask	A CliTask represents an invocation of the program from the command line
CSimPT_Shell::CliWorkspaceManager	Workspace manager for cli applications
CSimPT_Shell::ConversionList::EntryType
CSimPT_Shell::CsvExporter	Functions and data for CSV (comma-separated values) export of Sim objects
CSimPT_Shell::CsvGzExporter	Functions and data for gzip'ed CSV (comma-separated values) export of Sim objects
CSimPT_Shell::FileConversion	Manages file conversion operations specifications
CSimPT_Shell::FileConverterFormats	Bundles file converter formats specifications
CSimPT_Shell::FileViewer< FileType >	Viewer that writes to file and needs to maintain some state info w.r.t
CSimPT_Shell::FileViewerPreferences	Preferences for a file viewer
►CSimPT_Shell::GraphicsPreferences	Preferences for graphics viewer
CSimPT_Shell::BitmapGraphicsPreferences	Preferences for a graphic viewer
CSimPT_Shell::QtPreferences	Preferences for a graphic viewer
CSimPT_Shell::VectorGraphicsPreferences	Preferences for a graphic viewer
CSimPT_Shell::Hdf5Exporter	Functions and data for HDF5 export of Sim objects
CSimPT_Shell::Hdf5File	Contains facilities for storing the simulation Mesh to HDF5 files
►CSimPT_Shell::IConverterFormat	Interface for file convenvereter formats
CSimPT_Shell::Hdf5Format	Hdf5 converter format specifications
►CSimPT_Shell::TimeStepPostfixFormat	Manages time labels int file names
►CSimPT_Shell::ExporterFormat< CsvExporter >
CSimPT_Shell::CsvFormat	CSV converter format specifications
►CSimPT_Shell::ExporterFormat< CsvGzExporter >
CSimPT_Shell::CsvGzFormat	CSV gzipped converter format specifications
►CSimPT_Shell::ExporterFormat< PlyExporter >
CSimPT_Shell::PlyFormat	PLY converter format specifications
►CSimPT_Shell::ExporterFormat< XmlExporter >
CSimPT_Shell::XmlFormat	Xml converter format specifications
►CSimPT_Shell::ExporterFormat< XmlGzExporter >
CSimPT_Shell::XmlGzFormat	Xml gezipped converter format specifications
CSimPT_Shell::BitmapFormat	Bitmap graphics converter format specifications
CSimPT_Shell::ExporterFormat< Exporter >	Utility template for generating exporter formats
CSimPT_Shell::VectorFormat	Vector graphics converter format specifications
CSimPT_Shell::LogViewer	A viewer that logs sim events to console
CSimPT_Shell::LogWindowViewer	A viewer that displays sim events in a log in a dock window
CSimPT_Shell::MeshDrawer	Class drawing a simulator/mesh onto a QGraphicsScene
CSimPT_Shell::PlyExporter	Functions and data for PLY export of Sim objects
CSimPT_Shell::PTreeComparison	Collection of functions for recursively comparing ptrees, with some 'array' semantics applied
CSimPT_Shell::StepSelection	Class handling user input of ranges of steps
CSimPT_Shell::TextViewer< Exporter, GzExporter >	Viewer that periodically exports mesh to a text file, opening writing and closing the file again during a single export
CSimPT_Shell::TextViewerPreferences	Preferences for a text viewer
CSimPT_Shell::VectorGraphicsExporter	Functions and data for PDF export of Sim objects
CSimPT_Shell::XmlExporter	Functions and data for XML export of Sim objects
CSimPT_Shell::XmlGzExporter	Functions and data for gzip'ed XML export of Sim objects
CSimPT_Sim::AreaMoment	Structure with functionality for calculations of the area moment of inertia
CSimPT_Sim::AttributeContainer	Manages attributes
CSimPT_Sim::AttributeStore	Store and manage attributes
CSimPT_Sim::CBMBuilder	The Copy-Based Mesh Builder directs the Mesh building process using another mesh
►CSimPT_Sim::CellAttributes	Attributes of Cell
CSimPT_Sim::Cell	A cell contains walls and nodes
CSimPT_Sim::CellChemistryTag	Used in tag forwarding
CSimPT_Sim::CellColorTag	Used in tag forwarding
CSimPT_Sim::CellDaughtersTag	Used in tag forwarding
CSimPT_Sim::CellDivider	Class for handling cell division
CSimPT_Sim::CellHousekeeper	Class for handling maintenance of cell mechanics (cell housekeeping)
CSimPT_Sim::CellHousekeepTag	Used in tag forwarding
CSimPT_Sim::CellSplitTag	Used in tag forwarding
CSimPT_Sim::CellToCellTransportBoundaryTag	Used in tag forwarding
CSimPT_Sim::CellToCellTransportTag	Used in tag forwarding
CSimPT_Sim::ChainHull	Compute the convex hull of a set of two-dimensional points
CSimPT_Sim::ChainHull::Point	Point class needed by 2D convex hull code
CSimPT_Sim::ClockMan::ClockCLib	Clock based on C library clock_t clock() which returns an approximate processor time in ticks
►CSimPT_Sim::ClockMan::ClockTraits< C, D >	Types related to timekeeping
CSimPT_Default::TimeEvolver::Grow	Growth and division time evolution algorithm
CSimPT_Default::TimeEvolver::Housekeep	Housekeep time step algorithm
CSimPT_Default::TimeEvolver::HousekeepGrow	HousekeepGrow time step is a composite: Grow then Housekeep
CSimPT_Default::TimeEvolver::Transport	Time evolution of reaction, diffusion and active transport process
CSimPT_Default::TimeEvolver::VLeaf	VLeaf1 algorithm for time evolution
CSimPT_Default::TimeEvolver::VPTissue	Composite time step: ReactionAndTransport, then Grow and then Housekeep
CSimPT_Sim::ClockMan::Timeable< C, D >	Utility class to for timing
CSimPT_Sim::ClockMan::CumulativeRecords< T >	Utility class to record durations in a cumulative manner
CSimPT_Sim::ClockMan::IndividualRecords< T >	Utility class to record durations
CSimPT_Sim::ClockMan::Stopwatch< T >	Provides a stopwatch interface to time: it accumulates time between start/stop pairs
CSimPT_Sim::ClockMan::TimeStamp	Provides wall-clock time stamp using the time call
CSimPT_Sim::ClockMan::Utils	Utilities to tag clocks and to reformat number of ticks to a string
►CSimPT_Sim::ComponentFactoryBase	Interface for ComponentFactory
CSimPT_Blad::ComponentFactory	Component factory for the Blad model group
CSimPT_Default::ComponentFactory	Component factory for SimPT_Default model group
CSimPT_Sim::ComponentFactoryProxy	Proxy for interaction with Component Factory of model families
CSimPT_Sim::ComponentTraits< T >	Primary template never gets instantiated
CSimPT_Sim::ComponentTraits< CellChemistryTag >	Traits for CellChemistry components
CSimPT_Sim::ComponentTraits< CellColorTag >	Traits for CellColor components
CSimPT_Sim::ComponentTraits< CellDaughtersTag >	Traits for CellDaughters components
CSimPT_Sim::ComponentTraits< CellHousekeepTag >	Traits for CellHousekeep components
CSimPT_Sim::ComponentTraits< CellSplitTag >	Traits for CellSplit components
CSimPT_Sim::ComponentTraits< CellToCellTransportBoundaryTag >	Traits for CellToCellTransportBoundaryTag components
CSimPT_Sim::ComponentTraits< CellToCellTransportTag >	Traits for CellToCellTransport components
CSimPT_Sim::ComponentTraits< DeltaHamiltonianTag >	Traits for DeltaHamiltonian components
CSimPT_Sim::ComponentTraits< HamiltonianTag >	Traits for Hamiltonian components
CSimPT_Sim::ComponentTraits< MoveGeneratorTag >	Traits for MoveGenerator components
CSimPT_Sim::ComponentTraits< TimeEvolverTag >	Traits for TimeEvolver components
CSimPT_Sim::ComponentTraits< WallChemistryTag >	Traits for WallChemistry components
CSimPT_Sim::Container::SegmentedVector< T, N >	Container that stores objects "almost contiguously" and guarantees that pointers/iterators are not invalidated when the container grows
CSimPT_Sim::CoreData	Core data with mesh, parameters, random engine and time data
CSimPT_Sim::CSRMatrix	Represents a binary matrix with n rows and m columns in a Compressed Sparse Row representation
CSimPT_Sim::DeltaHamiltonianTag	Used in tag forwarding
CSimPT_Sim::DurstenfeldShuffle	Generate a random permuted sequence of integers 0,1,..., n
CSimPT_Sim::Edge	An Edge connects two nodes and is ambidextrous
CSimPT_Sim::Event::CoupledSimEvent	An event transmitted by a Coupled Simulator
CSimPT_Sim::Event::SimEvent	An event transmitted by a simulator
CSimPT_Sim::GeoData	Plain data structure with cell geometric data (such as area)
CSimPT_Sim::Geom	Provides geometric functions
CSimPT_Sim::HamiltonianTag	Used in tag forwarding
►CSimPT_Sim::ICoupler	Interface for the classes coupling two parallel simulations
CSimPT_Sim::ExchangeCoupler	ExchangeCoupler
CSimPT_Sim::MBMBuilder	MBMBDirector directs the Mesh building process using a MeshState object
CSimPT_Sim::Mesh	Structure of cells; key data structure
CSimPT_Sim::MeshCheck	Checks mesh concistency
CSimPT_Sim::MeshGeometry	Helper functions for mesh geometry
CSimPT_Sim::MeshState	Contains the state of the whole Mesh at a given simulation step
CSimPT_Sim::MeshTopology	Helper functions for mesh topology
CSimPT_Sim::MoveGeneratorTag	Used in tag forwarding
CSimPT_Sim::NeighborNodes	Structure of neighboring nodes: two neighboring nodes from standpoint of a given cell with an ordering "first" and "second" that corresponds with the node traversal order in that cell
►CSimPT_Sim::NodeAttributes	Attributes associated with a node
CSimPT_Sim::Node	Node in cell wall
CSimPT_Sim::NodeInserter	Insertion of nodes in existing edges (contributes to the cell mechanics)
CSimPT_Sim::NodeMover	Cell mechanics by displacement and insertion of nodes
CSimPT_Sim::NodeMover::MetropolisInfo	Information gathered to evaluat effects of Metropolis Algorithm
CSimPT_Sim::NodeMover::MoveInfo	Information related to (potential) move of a node in the mesh
CSimPT_Sim::OdeintFactory0	Produces factory function for odeint integrator algorithm
CSimPT_Sim::OdeintFactory2	Produces factory function for odeint integrator algorithm
CSimPT_Sim::OdeintTraits< S >	Contains an odeint system, a state and a solver for it
CSimPT_Sim::PBMBuilder	Class that directs ptree based mesh building process
CSimPT_Sim::PtreeTissueBuilder	Class directs ptree based tissue building process
CSimPT_Sim::RandomEngine	Creates a random generator based on a seed
CSimPT_Sim::RandomEngineType::Info	Info
CSimPT_Sim::SimState	Contains the state of the whole Simulator at a given simulation step
CSimPT_Sim::SimWrapper	Interface exposing the simulator to Java, Python, and C++ programs
CSimPT_Sim::SimWrapperResult< T >	All exceptions must be dealt with internally, so each method returns an object of this type
CSimPT_Sim::SimWrapperResult< void >	Specialization of SimWrapperResult template for type void
CSimPT_Sim::TimeData	Time data: current simulated time, number of step in simulation history
CSimPT_Sim::TimeEvolverTag	Used in tag forwarding
CSimPT_Sim::TimeSlicer	Simulator: mesh & parameters, model & algorithms
CSimPT_Sim::Tissue	Tissue data with mesh, cell attributes, node attributes and wall attributes
CSimPT_Sim::TransportEquations	Equations for reaction and transport processes
CSimPT_Sim::Util::FunctionMap< S >	A map to hold std::functions
CSimPT_Sim::Util::PTreeFile	Utility interface for dealing with ptree xml or xml.gz files
CSimPT_Sim::Util::PTreeUtils	A collection of functions for manipulating the structure of ptrees
CSimPT_Sim::Util::RevisionInfo	Info on revision id and commit date
CSimPT_Sim::Util::Subject< E, K >	Subject in Observer pattern
CSimPT_Sim::Util::Subject< E, std::weak_ptr< const void > >	Partial specialization for weak_ptr<void> key type
CSimPT_Sim::Util::XmlWriterSettings	Settings for xml output of Property Trees (ptree)
►CSimPT_Sim::WallAttributes	Attributes associated with a wall
CSimPT_Sim::Wall	A cell wall, runs between cell corner points and consists of wall elements
CSimPT_Sim::WallChemistryTag	Used in tag forwarding
CSimShell::Gui::EnabledActions	Helper class to enable or disable a collection of QAction and QMenu objects at once
►CSimShell::Gui::HasUnsavedChanges	Abstract class that represents the ability be in closed or opened state, and, if the latter, in clean or dirty state
CSimShell::Gui::HasUnsavedChangesDummy	Dummy UnsavedChanges class
►CSimShell::Gui::HasUnsavedChangesPrompt	HasUnsavedChanges with the ability of displaying a "save-discard-cancel" dialog to the user before closing, if there are unsaved changes
CSimPT_Editor::TissueEditor	Main GUI class for cell editor
CSimPT_Shell::Gui::PTreeEditor	Stand-alone Property Tree editor
CSimShell::Gui::Controller::ProjectController	Project controller
CSimShell::Gui::Controller::WorkspaceController	Controller for workspace
CSimShell::Gui::PTreeContainer	For a given ptree, constructs PTreeMenu, QDockWidget, PTreeEditorWindow
CSimShell::Gui::PTreeEditorWindow	Small editor widget for a Boost Property Tree object
CSimShell::Gui::PTreeMenu	A menu reflecting the structure of a ptree
►CSimShell::Gui::IFactory	Factory for application-specific stuff in generic simshell GUI
CSimPT_Shell::Gui::AppCustomizer	Provides customization elements for the gui shell
►CSimShell::Gui::IHasPTreeState	Interface for objects that have non-critical state (metadata) information representable as a ptree
CSimShell::Gui::Controller::AppController	Main window of GUI
CSimShell::Gui::Controller::ProjectController	Project controller
CSimShell::Gui::Controller::WorkspaceController	Controller for workspace
CSimShell::Gui::MyDockWidget	QDockWidget with methods to import/export widget layout (x,y,width, ...) in ptree format
CSimShell::Gui::MyTreeView	QTreeView with methods to import/export widget layout (x,y,width, ...) in ptree format
CSimShell::Gui::PTreeContainer	For a given ptree, constructs PTreeMenu, QDockWidget, PTreeEditorWindow
CSimShell::Gui::PTreeEditorWindow	Small editor widget for a Boost Property Tree object
CSimShell::Gui::WorkspaceQtModel::Item::FI
CSimShell::Gui::WorkspaceQtModel::Item::PR
CSimShell::Gui::WorkspaceQtModel::Item::WS
CSimShell::InstallDirs	Install directories
CSimShell::PTreeQtState	Utility for representing state of various Qt widgets as a ptree
CSimShell::Session::ISession::ExporterType
CSimShell::Viewer::Event::ViewerEvent	An event transmitted by viewers to notify whether they are enabled or disabled
CSimShell::Viewer::InitNotifier< ViewerType, SubjectType >
CSimShell::Viewer::Register< enabled >
CSimShell::Viewer::Register< true >
CSimShell::Viewer::viewer_is_subject< ViewerType >
CSimShell::Viewer::viewer_is_widget< ViewerTYpe >
CSimShell::Ws::Event::MergedPreferencesChanged
CSimShell::Ws::Event::PreferencesChanged	Event used to inform some observer that preferences have changed
CSimShell::Ws::Event::ProjectChanged	Event used to inform some observer that a project has changed
CSimShell::Ws::Event::WorkspaceChanged	Event used to inform some observer that the workspace has changed
►CSimShell::Ws::IFile	Interface for files in a project in a workspace
►CSimPT_Shell::Ws::StartupFileBase	Base class representing the file types used to initiate a session
CSimPT_Shell::Ws::StartupFileHdf5	A file containing Sim history information in HDF5 format in a project
►CSimPT_Shell::Ws::StartupFilePtree	Base class for files containing a Sim snapshot that can be read as a ptree
CSimPT_Shell::Ws::StartupFileXml	A file containing XML representation of a project
CSimPT_Shell::Ws::StartupFileXmlGz	A file containing a gzip'ed XML representation of a project
CSimShell::Ws::IProject::WidgetCallback
►CSimShell::Ws::IUserData	Interface that expresses the ability to have user data, i.e
►CSimShell::Ws::IProject	Interface for project-like behavior
►CSimShell::Ws::Project< FileType, index_file >	Abstraction of project in workspace on file system
CSimPT_Shell::Ws::Project	Abstraction of project info on filesystem, as well as a maintainer of a work session
►CSimShell::Ws::IWorkspace	Interface for workspace-like behavior
CSimShell::Ws::Workspace< ProjectType, index_file >	Abstraction of workspace on file system
►CSimShell::Ws::Workspace< Project, WorkspaceFactory::g_workspace_index_file >
►CSimPT_Shell::Ws::Workspace	Abstraction for workspace info in the file system
CSimPT_Shell::Ws::CliWorkspace	Cli Workspace for the command-line simulator
CSimPT_Shell::Ws::GuiWorkspace	Gui Workspace for the simulator
CSimShell::Ws::IWorkspace::ProjectMapEntry
►CSimShell::Ws::IWorkspaceFactory	Interface for factories creating an application-specific workspace
CSimPT_Shell::Ws::WorkspaceFactory	SimPT-specific implementation of workspace factory
Cstd::enable_shared_from_this	See the online C++11 documentation
►Cstd::exception	STL class
CSimPT_Sim::Util::Exception	Extremely simple Exception root class
Cstd::iterator	See the online C++11 documentation
►CSimPT_Sim::Util::Subject< Event::MergedPreferencesChanged, std::weak_ptr< const void > >
CSimShell::Ws::MergedPreferences	Wrapper around workspace to have read and write access to merged (workspace + project) preferences
►CSimPT_Sim::Util::Subject< Event::PreferencesChanged, std::weak_ptr< const void > >
►CSimShell::Ws::IPreferences	Interface expressing the ability of an object to have a ptree of preferences stored in it
CSimShell::Ws::IProject	Interface for project-like behavior
CSimShell::Ws::IWorkspace	Interface for workspace-like behavior
►CSimShell::Ws::Preferences	Implementation of IPreferences
CSimShell::Ws::Project< FileType, index_file >	Abstraction of project in workspace on file system
CSimShell::Ws::Workspace< ProjectType, index_file >	Abstraction of workspace on file system
CSimShell::Ws::Workspace< Project, WorkspaceFactory::g_workspace_index_file >
►CSimPT_Sim::Util::Subject< Event::ProjectChanged, std::weak_ptr< const void > >
CSimShell::Ws::IProject	Interface for project-like behavior
►CSimPT_Sim::Util::Subject< Event::ViewerEvent, std::weak_ptr< const void > >
►CSimShell::Viewer::IViewerNode	Interface for a node in a hierarchical tree of viewers
►CSimShell::Viewer::IViewerNodeWithParent< FakeSubjectType >
CSimShell::Viewer::SubjectViewerNodeWrapper< FakeSubjectType >
►CSimShell::Viewer::IViewerNodeWithParent< SubjectType >	A viewer node with a parent
CSimShell::Viewer::ViewerNode< ViewerType, SubjectType >	Template implementing a node in a hierarchical tree of viewers.Parameters:
►CSimShell::Viewer::SubjectNode< SubjectType >	A viewer node that does not represent a viewer at all
CSimPT_Shell::Viewer::RootViewerNode< SubjectType >	Viewer node that acts as the root of the tree of viewers
►CSimPT_Sim::Util::Subject< Event::WorkspaceChanged, std::weak_ptr< const void > >
CSimShell::Ws::IWorkspace	Interface for workspace-like behavior
►CSimPT_Sim::Util::Subject< SimPT_Sim::Event::CoupledSimEvent, std::weak_ptr< const void > >
CSimPT_Sim::CoupledSim	Coupled Simulator: multiple simulators and couplers
►CSimPT_Sim::Util::Subject< SimPT_Sim::Event::SimEvent, std::weak_ptr< const void > >
CSimPT_Sim::Sim	Simulator: mesh & parameters, model & algorithms
CCallbackType
Cconst FunctionType
CKeyType