  Avogadro | |
  Core | |
| internal | |
  ArrayRefContainer | |
 Array | Base class for array containers |
| AtomTemplate | |
| AtomTyper | The AtomTyper class provides a base interface for generating a list of type identifiers describing the atoms in a molecule |
| AvoSpglib | Interface between Avogadro and Spglib |
| BasisSet | BasisSet contains basis set data |
| BondTemplate | |
| Color3f | Representation of an RGB color using three floats |
| CoordinateBlockGenerator | Creates an aligned, formatted block of atomic coordinates |
| ArraySet | Base class for array type containers |
| Holder | |
| PlaceHolder | |
| CoordinateSet | Templated class for array type containers |
| CrystalTools | Collection of static functions that perform common crystallographic operations on a Core::Molecule |
| Cube | Provide a data structure for regularly spaced 3D grids |
| Elements | Stores basic data about chemical elements |
| GaussianSet | A container for Gaussian type outputs from QM codes |
| GaussianSetTools | Provide tools to calculate molecular orbitals, electron densities and other derived data stored in a GaussianSet result |
| Graph | Graph data structure |
| Mesh | Encapsulation of a triangular mesh that makes up a surface |
| Molecule | Chemical molecule |
| Atom | |
| Bond | |
| Mutex | Simple wrapper for the C++11 or Boost mutex class |
| NameAtomTyper | Simple implementation of AtomTyper that assigns element names to each atom |
| RingPerceiver | |
| SlaterSet | SlaterSet Class |
| SlaterSetTools | Provide tools to calculate molecular orbitals, electron densities and other derived data stored in a GaussianSet result |
| SpaceGroups | The Spacegroups class stores basic data about crystal spacegroups |
| SymbolAtomTyper | Simple implementation of AtomTyper that assigns element symbols to each atom |
| UnitCell | Representation of a crystal's unit cell |
| Variant | Union of data values |
| VariantMap | Map between string keys and variant values |
| MoleculeDeserializer | Implementation of ProtoCall::Serialization::Deserializer |
| MoleculeSerializer | Implementation of ProtoCall::Serialization::Serializer |
| Io | |
| CjsonFormat | Implementation of the Chemical JSON format |
| CmlFormat | Implementation of the Chemical Markup Language format |
| FileFormat | General API for file formats |
| FileFormatManager | Class to manage registration, searching and creation of file formats |
| GromacsFormat | Simple GROMACS .gro file reader |
| Hdf5DataFormat | Access to data stored in HDF5 files |
| MdlFormat | Implementation of the generic MDL format |
| PoscarFormat | Implementation of the generic POSCAR format |
| XyzFormat | Implementation of the generic xyz format |
| MoleQueue | |
| BatchJob | Manages a collection of jobs that are configured using the same InputGenerator and MoleQueue options. For use with InputGeneratorDialog::configureBatchJob(BatchJob&) |
| InputGenerator | Interface to input generator scripts |
| InputGeneratorDialog | Thin wrapper around InputGeneratorWidget for standalone use |
| InputGeneratorWidget | User interface for configuring, saving, editing, and running input files produced by InputGenerator scripts |
| MoleQueueDialog | Thin wrapper around MoleQueueWidget for standalone use |
| MoleQueueManager | Access to a MoleQueue server |
| MoleQueueQueueListModel | Qt item model representing the tree of available queues and programs in a running MoleQueue process |
| MoleQueueWidget | Widget for configuring and submitting a MoleQueue::JobObject |
| QtGui | |
| ContainerWidget | A widget that contains a single view widget, along with standard buttons for splitting, maximizing, closing |
| CustomElementDialog | Dialog window for mapping custom elements into elemental types |
| ElementDetail | |
| ElementItem | |
| ElementTranslator | Internationalization of element names |
| ExtensionPlugin | The base class for extension plugin factories in Avogadro |
| ExtensionPluginFactory | The base class for extension plugin factories in Avogadro |
| FileBrowseWidget | |
| FileFormatDialog | |
| GenericHighlighter | Regexp-based programmable syntax highlighter |
| Rule | Stores a syntax highlighting rule as a set of QRegExp patterns and a text format |
| HydrogenTools | |
| MeshGenerator | Class that can generate Mesh objects from Cube objects |
| Molecule | A QObject derived molecule object with signals/slots |
| MoleculeSystem | |
| MoleculeModel | A model containing molecules |
| MultiViewWidget | A widget that contains other views, taking on responsibility for defining the active view, the layout of the subviews and ownership of the widgets |
| PeriodicTableScene | |
| PeriodicTableView | This class implements the view of the periodic table showing all elements |
| PersistentAtom | The PersistentAtom object provides a container for a persistent atom reference that can be held onto. The atom() method gets the underlying atom using the unique ID mechanism of the molecule |
| PersistentBond | The PersistentBond object provides a container for a persistent bond reference that can be held onto. The bond() method gets the underlying bond using the unique ID mechanism of the molecule |
| PythonScript | Implements a interface for calling short-lived python utility scripts |
| RWMolecule | Editable molecule class that automatically populates an undo stack |
| RWAtom | |
| RWBond | |
| ScenePlugin | |
| ScenePluginFactory | The base class for scene plugin factories in Avogadro |
| ScenePluginModel | A model containing scene plugins that will build up the scene |
| ToolPlugin | The base class for plugins that interact with QtOpenGL::GLWidget |
| ToolPluginFactory | The base class for tool plugin factories in Avogadro |
| ViewFactory | Pure virtual that provides a method of dynamically adding views to the MultiViewWidget class |
| Rendering | |
| AmbientOcclusionSphereGeometry | One or more spheres |
| BufferObject | Buffer object to store geometry/attribute data on the GPU |
| Camera | Utility functionality useful in camera's used with 3D scenes |
| CylinderColor | |
| CylinderGeometry | The CylinderGeometry contains one or more cylinders |
| Drawable | The base class for all drawable geometry and types |
| GeometryNode | Common base of all geometry nodes |
| GeometryVisitor | Visitor that determines the geometry of the scene |
| GLRenderer | Render the scene using OpenGL calls |
| GLRenderVisitor | Visitor that takes care of rendering the scene |
| GroupNode | Common API for grouping child nodes |
| LineStripGeometry | Used to store sets of line strips |
| PackedVertex | |
| MeshGeometry | The MeshGeometry is used for triangle mesh geometry |
| PackedVertex | |
| Node | Base class for all items in the scene |
| POVRayVisitor | Visitor that visits scene elements and creates a POV-Ray input file |
| Identifier | |
| Primitive | |
| Identifier | |
| Sphere | |
| Cylinder | |
| ColorTextureVertex | Pack the vertex data into a contiguous array |
| ColorNormalVertex | Pack the vertex data into a contiguous array |
| Scene | The Scene contains data ready to be rendered |
| Shader | Vertex or Fragment shader, combined into a ShaderProgram |
| ShaderProgram | The ShaderProgram uses one or more Shader objects |
| SphereColor | |
| SphereGeometry | One or more spheres |
| TextLabel2D | Renders text in an overlay plane, anchored to a point in window coordinates |
| TextLabel3D | Renders billboarded text that is anchored to a point in world coordinates |
| TextLabelBase | Generic implementation of a text drawable |
| TextProperties | Controls formatting options for text |
| TextRenderStrategy | Defines an interface for generating text images |
| Texture2D | Manages texture resources in graphics libraries |
| TransformNode | Applies a transform to all child nodes |
| Visitor | Base class for all Node visitors |
| VolumeGeometry | Regularly spaced volumetric data set |
| QtOpenGL | |
| GLWidget | QGLWidget derived object for displaying 3D molecular geometry |
| QtTextRenderStrategy | Uses the Qt toolkit to render text |
| QtPlugins | |
| ThreeDMol | Extension to launch a ThreeDMolDialog |
| ThreeDMolDialog | Dialog which displays basic molecular properties |
| Apbs | Integration with the APBS package, primarily reading the OpenDX output files produced by it at this point |
| ApbsDialog | Dialog for running APBS |
| ApbsOutputDialog | Dialog indicating a successful run of APBS |
| OpenDxReader | Provide a reader for OpenDX files |
| BallAndStick | Render a molecule in the ball and stick style |
| BondCentricTool | BondCentricTool manipulates molecular geometry by adjusting bond angles/lengths |
| Bonding | Performs bonding operations on demand |
| ClientServer | Plugin used to connect to and perform remote operations on an Avodadro server |
| ConnectionSettingsDialog | Dialog to set the connection settings for connecting to a remote server |
| CoordinateEditor | CoordinateEditor implements the plugin interface for the coordinate editor extension |
| CoordinateEditorDialog | Implements a free-text coordinate editor |
| CoordinateTextEdit | Extends QTextEdit to provide context tooltips and highlighting for syntax errors |
| CopyPaste | Allows interaction with the system clipboard |
| Crystal | Tools for crystal-specific editing/analysis |
| CrystalScene | Render the unit cell boundaries |
| ImportCrystalDialog | Dialog for importing a crystal from the clipboard |
| SupercellDialog | Dialog for building a supercell from a crystal |
| UnitCellDialog | Dialog for editing a molecule's unit cell |
| VolumeScalingDialog | Dialog with options for adjusting the volume of a Molecule's UnitCell |
| CustomElements | Manipulate custom element types in the current molecule |
| Editor | The Editor tool extends and modifies molecules |
| EditorToolWidget | |
| GamessHighlighter | |
| GamessInput | |
| GamessInputDialog | |
| Hydrogens | Extension to modify hydrogens |
| Licorice | Render a molecule in the licorice style |
| LineFormatInput | Load single-line molecule descriptors through an input dialog |
| LineFormatInputDialog | Dialog to prompt a format and descriptor string |
| Manipulator | Manipulates a molecule's geometry |
| MeasureTool | MeasureTool displays distances and angles between selected atoms |
| Meshes | Render one or more triangular meshes |
| MolecularProperties | Extension to launch a MolecularPropertiesDialog |
| MolecularPropertiesDialog | Dialog which displays basic molecular properties |
| MongoChem | Extension to interact with MongoChem |
| Navigator | The Navigator tool updates the camera in response to user input |
| NetworkDatabases | Queries online databases (currently the NIH structure resolver) and loads the returned structure if one is found |
| OBFileFormat | Implements the FileFormat API for using an OBProcess for file IO |
| OBForceFieldDialog | Used to prompt the user for parameters to be used in an OpenBabel force field optimization |
| OBProcess | Interface to the obabel executable, which is run in a separate process |
| OpenBabel | Implements the ExtensionPlugin interface to expose some OpenBabel functionality |
| OverlayAxes | Render reference axes in the corner of the display |
| PlayerTool | PlayerTool enables playback of trajectories |
| PluginFactory | The base class for plugin factories in Avogadro |
| PluginManager | This class takes care of finding and loading Avogadro plugins |
| POVRay | Performs POVRay operations on demand |
| QTAIMCriticalPointLocator | |
| QTAIMCubature | |
| QTAIMEngine | |
| QTAIMExtension | |
| QTAIMLSODAIntegrator | |
| QTAIMODEIntegrator | |
| QTAIMWavefunction | |
| QTAIMWavefunctionEvaluator | |
| QuantumInput | Implements the extension interface for simulation input generators |
| GaussianSetConcurrent | Uses GaussianSetTools to calculate values of electronic structure properties from quantum output read in |
| QuantumOutput | |
| SlaterSetConcurrent | Uses SlaterSetTools to calculate values of electronic structure properties from quantum output read in |
| SurfaceDialog | The SurfaceDialog presents various properties that have been read in from a quantum output file and provides interface to initiate calculations |
| FileFormatScript | Interfaces with external scripts that implement chemical file reader/writers |
| ScriptFileFormats | This extension registers FileFormat reader/writers that are implemented as external scripts |
| SelectionTool | SelectionTool selects atoms and bonds from the screen |
| SpaceGroup | Space group features for crystals |
| Spectra | The Spectra plugin handles vibrations and spectra |
| VibrationDialog | The VibrationDialog presents vibrational modes |
| VibrationModel | |
| VanDerWaals | Render the molecule as Van der Waals spheres |
| VanDerWaalsAO | Render the molecule as Van der Waals spheres with ambient occlusion |
| Wireframe | Render a molecule in the wireframe style |
| QuantumIO | |
| GUKBasisSet | |
| GamessukOut | |
| GAMESSUSOutput | |
| GaussianCube | |
| GaussianFchk | |
| MoldenFile | |
| MopacAux | |
| NWChemJson | Implementation of the NWChem JSON format |
| NWChemLog | |
| VTK | |
| vtkGLWidget | |
| TypeTraits | |
| TypeTraits< char > | |
| TypeTraits< unsigned char > | |
| TypeTraits< short > | |
| TypeTraits< unsigned short > | |
| TypeTraits< int > | |
| TypeTraits< unsigned int > | |
| TypeTraits< float > | |
| TypeTraits< double > | |
| AvogadroServer | Simple server implementation based on vtkServerSocket, accepting connections and processing ProtoCall requests |
| AvoRemoteFileSystemService | Server side implementation of RemoteFileSystemService. Provides methods for browsing a remote filesystem |
| AvoRemoteMoleculeService | The server side implementation of the RemoteMoleculeService, provides functionality to open a molecule on a remote system |
| FileDialog | Remote file dialog |
| FileDialogFilter | Filter used to filter data in file dialog model |
| FileDialogModel | Remote file dialog model |
| FileDialogModelIconProvider | |
| vtkAvogadroActor | Wrap an Avogadro::Rendering::Scene in a vtkActor derived container so that it can be rendered in a standard VTK widget |
1.8.5
