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C

c - Variable in class au.edu.unsw.cse.ColorControl
 
C - Variable in class mgui.geometry.Mesh3D.MeshFace3D
 
C - Variable in class mgui.geometry.Triangle3D
 
cache - Variable in class mgui.datasources.LinkedDataStream
 
cache - Variable in class mgui.interfaces.datasources.DataTableModel
 
cached - Variable in class mgui.datasources.LinkedDataStream
 
cal_max - Variable in class mgui.io.standard.nifti.Nifti1Dataset
 
cal_min - Variable in class mgui.io.standard.nifti.Nifti1Dataset
 
calcLastSec(int, int, long) - Method in class au.edu.unsw.cse.Viewer
Estimate mouse movement in last second
call(String) - Static method in class mgui.command.CommandFunctions
Makes a call to the command console and returns immediately TODO: allow an ESC interrupt
call(String, String) - Static method in class mgui.command.CommandFunctions
Makes a call to the command console and returns immediately.
call(String, String, HashMap<String, String>) - Static method in class mgui.command.CommandFunctions
Makes a call to the command console and returns immediately.
callAndWait(String) - Static method in class mgui.command.CommandFunctions
Calls command and blocks until it is complete
callAndWait(String, String) - Static method in class mgui.command.CommandFunctions
Calls command and blocks until it is complete
callAndWait(String, String, long) - Static method in class mgui.command.CommandFunctions
Calls command and blocks until it is complete
callAndWait(String, String, long, HashMap<String, String>) - Static method in class mgui.command.CommandFunctions
Calls command and blocks until it is complete
callAndWait(String, String, long, HashMap<String, String>, boolean) - Static method in class mgui.command.CommandFunctions
Calls command and blocks until it is complete
callMethod(String, String, ArrayList<?>, ProgressUpdater) - Method in class mgui.geometry.mesh.MeshEngine
 
callMethod(String, String, ArrayList<?>, ProgressUpdater) - Method in class mgui.geometry.neuro.mesh.NeuroMeshEngine
 
callMethod(String, String, ArrayList<?>, ProgressUpdater) - Method in class mgui.geometry.volume.VolumeEngine
 
callMethod(String, String, ArrayList<?>, ProgressUpdater) - Method in class mgui.interfaces.graphics.util.DrawingEngine
 
callMethod(String, String, ArrayList<?>, ProgressUpdater) - Method in class mgui.interfaces.shapes.util.ShapeEngine
 
callMethod(String, String, ArrayList<?>, ProgressUpdater) - Method in interface mgui.interfaces.util.Engine
Calls the specified operation/method pair.
callMethod(String, String, ProgressUpdater) - Method in class mgui.geometry.mesh.MeshEngine
 
callMethod(String, String, ProgressUpdater) - Method in class mgui.geometry.neuro.mesh.NeuroMeshEngine
 
callMethod(String, String, ProgressUpdater) - Method in class mgui.geometry.volume.VolumeEngine
 
callMethod(String, String, ProgressUpdater) - Method in class mgui.interfaces.graphics.util.DrawingEngine
 
callMethod(String, String, ProgressUpdater) - Method in class mgui.interfaces.shapes.util.ShapeEngine
 
callMethod(String, String, ProgressUpdater) - Method in interface mgui.interfaces.util.Engine
Calls the specified operation/method pair.
camera - Variable in class mgui.interfaces.graphics.View3D
 
camera - Variable in class mgui.interfaces.maps.Map3D
 
camera_start - Variable in class mgui.interfaces.graphics.video.RotateView3DTask
 
camera_start - Variable in class mgui.interfaces.graphics.video.SetView3DTask
 
Camera3D - Class in mgui.interfaces.maps
Represents a particular camera position in R3, defined by a center of rotation, line of sight vector, and a distance.
Camera3D() - Constructor for class mgui.interfaces.maps.Camera3D
 
Camera3D(String) - Constructor for class mgui.interfaces.maps.Camera3D
 
Camera3D.CameraLightSource - Class in mgui.interfaces.maps
 
Camera3DLight - Class in mgui.interfaces.maps
 
Camera3DLight() - Constructor for class mgui.interfaces.maps.Camera3DLight
 
Camera3DListener - Interface in mgui.interfaces.maps
 
cameraAngleChanged(CameraEvent) - Method in class mgui.interfaces.graphics.InterfaceGraphic3D
 
cameraAngleChanged(CameraEvent) - Method in class mgui.interfaces.graphics.InterfaceGraphicPanel
 
cameraAngleChanged(CameraEvent) - Method in interface mgui.interfaces.maps.Camera3DListener
 
cameraAngleChanged(CameraEvent) - Method in class mgui.interfaces.shapes.volume.Volume3DRenderer
 
cameraChanged(CameraEvent) - Method in class mgui.interfaces.graphics.InterfaceGraphic3D
 
cameraChanged(CameraEvent) - Method in class mgui.interfaces.graphics.InterfaceGraphicPanel
 
cameraChanged(CameraEvent) - Method in interface mgui.interfaces.maps.Camera3DListener
 
cameraChanged(CameraEvent) - Method in class mgui.interfaces.shapes.volume.Volume3DRenderer
 
CameraChanged - mgui.interfaces.events.CameraEvent.EventType
 
CameraEvent - Class in mgui.interfaces.events
 
CameraEvent(Camera3D) - Constructor for class mgui.interfaces.events.CameraEvent
 
CameraEvent(Camera3D, CameraEvent.EventType) - Constructor for class mgui.interfaces.events.CameraEvent
 
CameraEvent.EventType - Enum in mgui.interfaces.events
 
CameraLightSource(DirectionalLight, Vector2d) - Constructor for class mgui.interfaces.maps.Camera3D.CameraLightSource
 
camino_root - Static variable in class mgui.neuro.imaging.camino.CaminoEnvironment
 
CaminoCatTask - Class in mgui.neuro.imaging.camino.tasks
Wraps class UnixFunctions.cat, in order to set correct directories from the Camino environment.
CaminoCatTask() - Constructor for class mgui.neuro.imaging.camino.tasks.CaminoCatTask
 
CaminoCopyTask - Class in mgui.neuro.imaging.camino.tasks
 
CaminoCopyTask() - Constructor for class mgui.neuro.imaging.camino.tasks.CaminoCopyTask
 
CaminoEnvironment - Class in mgui.neuro.imaging.camino
 
CaminoEnvironment() - Constructor for class mgui.neuro.imaging.camino.CaminoEnvironment
 
CaminoException - Exception in mgui.neuro.imaging.camino
 
CaminoException(String) - Constructor for exception mgui.neuro.imaging.camino.CaminoException
 
CaminoFunctions - Class in mgui.neuro.imaging.camino
 
CaminoFunctions() - Constructor for class mgui.neuro.imaging.camino.CaminoFunctions
 
CaminoPipelineLoader - Class in mgui.io.foreign.camino
 
CaminoPipelineLoader() - Constructor for class mgui.io.foreign.camino.CaminoPipelineLoader
 
CaminoPipelineLoader(File) - Constructor for class mgui.io.foreign.camino.CaminoPipelineLoader
 
CaminoPipelineTree - Class in mgui.interfaces.neuro.imaging.camino
 
CaminoPipelineTree(DefaultTreeModel) - Constructor for class mgui.interfaces.neuro.imaging.camino.CaminoPipelineTree
 
CaminoPipelineTree(DefaultTreeModel, InterfaceCaminoPanel) - Constructor for class mgui.interfaces.neuro.imaging.camino.CaminoPipelineTree
 
CaminoPipelineTree.PopupObject - Enum in mgui.interfaces.neuro.imaging.camino
 
CaminoPipelineWriter - Class in mgui.io.foreign.camino
 
CaminoPipelineWriter() - Constructor for class mgui.io.foreign.camino.CaminoPipelineWriter
 
CaminoPipelineWriter(File) - Constructor for class mgui.io.foreign.camino.CaminoPipelineWriter
 
CaminoProcess - Class in mgui.interfaces.neuro.imaging.camino
Extends JavaProcess specifically for Camino processes.
CaminoProcess(String, String) - Constructor for class mgui.interfaces.neuro.imaging.camino.CaminoProcess
 
CaminoProcess(String, String, String) - Constructor for class mgui.interfaces.neuro.imaging.camino.CaminoProcess
 
CaminoProcessDialogBox - Class in mgui.interfaces.neuro.imaging.camino
 
CaminoProcessDialogBox() - Constructor for class mgui.interfaces.neuro.imaging.camino.CaminoProcessDialogBox
 
CaminoProcessDialogBox(InterfaceOptions) - Constructor for class mgui.interfaces.neuro.imaging.camino.CaminoProcessDialogBox
 
CaminoProcesses - Class in mgui.neuro.imaging.camino
 
CaminoProcesses() - Constructor for class mgui.neuro.imaging.camino.CaminoProcesses
 
CaminoProcessOptions - Class in mgui.interfaces.neuro.imaging.camino
 
CaminoProcessOptions() - Constructor for class mgui.interfaces.neuro.imaging.camino.CaminoProcessOptions
 
CaminoProject - Class in mgui.neuro.imaging.camino
 
CaminoProject(String, File) - Constructor for class mgui.neuro.imaging.camino.CaminoProject
 
CaminoProject(String, String) - Constructor for class mgui.neuro.imaging.camino.CaminoProject
 
CaminoProjectDialogBox - Class in mgui.interfaces.neuro.imaging.camino
 
CaminoProjectDialogBox() - Constructor for class mgui.interfaces.neuro.imaging.camino.CaminoProjectDialogBox
 
CaminoProjectDialogBox(JFrame, InterfaceOptions) - Constructor for class mgui.interfaces.neuro.imaging.camino.CaminoProjectDialogBox
 
CaminoProjectLoader - Class in mgui.io.foreign.camino
 
CaminoProjectLoader() - Constructor for class mgui.io.foreign.camino.CaminoProjectLoader
 
CaminoProjectLoader(File) - Constructor for class mgui.io.foreign.camino.CaminoProjectLoader
 
CaminoProjectOptions - Class in mgui.interfaces.neuro.imaging.camino
 
CaminoProjectOptions() - Constructor for class mgui.interfaces.neuro.imaging.camino.CaminoProjectOptions
 
CaminoProjectOptions(CaminoProject) - Constructor for class mgui.interfaces.neuro.imaging.camino.CaminoProjectOptions
 
CaminoProjectWriter - Class in mgui.io.foreign.camino
 
CaminoProjectWriter() - Constructor for class mgui.io.foreign.camino.CaminoProjectWriter
 
CaminoProjectWriter(File) - Constructor for class mgui.io.foreign.camino.CaminoProjectWriter
 
CaminoProjectXMLHandler - Class in mgui.io.foreign.camino.xml
 
CaminoProjectXMLHandler() - Constructor for class mgui.io.foreign.camino.xml.CaminoProjectXMLHandler
 
CaminoTask - Class in mgui.neuro.imaging.camino
Simple port into apps.EntryPoint, which first resets the Camino environment.
CaminoTask() - Constructor for class mgui.neuro.imaging.camino.CaminoTask
 
CaminoTaskDialogBox - Class in mgui.interfaces.neuro.imaging.camino
 
CaminoTaskDialogBox() - Constructor for class mgui.interfaces.neuro.imaging.camino.CaminoTaskDialogBox
 
CaminoTaskDialogBox(JFrame, InterfaceOptions) - Constructor for class mgui.interfaces.neuro.imaging.camino.CaminoTaskDialogBox
 
CaminoTaskOptions - Class in mgui.interfaces.neuro.imaging.camino
 
CaminoTaskOptions() - Constructor for class mgui.interfaces.neuro.imaging.camino.CaminoTaskOptions
 
CaminoTaskTreeNode - Class in mgui.neuro.imaging.camino
 
CaminoTaskTreeNode(PipelineTask, JTree) - Constructor for class mgui.neuro.imaging.camino.CaminoTaskTreeNode
 
cancel() - Method in class mgui.interfaces.gui.AbstractProgressUpdater
 
cancel() - Method in class mgui.interfaces.gui.InterfaceProgressBar
 
cancel() - Method in interface mgui.interfaces.ProgressUpdater
Cancels execution of the process monitored by this updater.
Cancel_Input_Opt - mgui.interfaces.io.InterfaceFilePanel.Command
 
Cancel_Output_Opt - mgui.interfaces.io.InterfaceFilePanel.Command
 
cancelCellEditing() - Method in class mgui.interfaces.trees.AbstractTreeCellEditor
 
cancelUpdate() - Method in class mgui.datasources.DataRecordSet
Cancels an update initiated by an AddNew or Edit process.
cancelUpdate() - Method in class mgui.interfaces.datasources.DataTableModel
Cancels the current update
canImport(TransferHandler.TransferSupport) - Method in class mgui.interfaces.pipelines.trees.PipelineTreeTransferHandler
 
canQuery(InterfaceQueryObject) - Method in class mgui.interfaces.queries.InterfaceQuery
Determines whether this query instance can query the given InterfaceQueryObject.
canQuery(InterfaceQueryObject) - Method in class mgui.interfaces.shapes.queries.InterfaceShapeQuery
 
canvas3D - Variable in class mgui.interfaces.graphics.InterfaceCanvas3D
 
canvas3D - Variable in class mgui.interfaces.graphics.InterfaceGraphic3D
 
CanvasEvent - Class in mgui.interfaces.graphics
 
CanvasEvent(Canvas3D) - Constructor for class mgui.interfaces.graphics.CanvasEvent
 
CanvasListener - Interface in mgui.interfaces.graphics
 
CaretAreaColourInDialogBox - Class in mgui.io.foreign.caret
 
CaretAreaColourInDialogBox() - Constructor for class mgui.io.foreign.caret.CaretAreaColourInDialogBox
 
CaretAreaColourInDialogBox(JFrame, InterfaceIOPanel, InterfaceIOOptions) - Constructor for class mgui.io.foreign.caret.CaretAreaColourInDialogBox
 
CaretAreaColourInOptions - Class in mgui.io.foreign.caret
 
CaretAreaColourInOptions() - Constructor for class mgui.io.foreign.caret.CaretAreaColourInOptions
 
CaretAreaColourLoader - Class in mgui.io.foreign.caret
A hack to read Caret area colour files.
CaretAreaColourLoader() - Constructor for class mgui.io.foreign.caret.CaretAreaColourLoader
 
CaretAreaColourLoader(File) - Constructor for class mgui.io.foreign.caret.CaretAreaColourLoader
 
CaretAreaColourOutDialogBox - Class in mgui.io.foreign.caret
 
CaretAreaColourOutDialogBox() - Constructor for class mgui.io.foreign.caret.CaretAreaColourOutDialogBox
 
CaretAreaColourOutDialogBox(JFrame, InterfaceIOPanel, InterfaceIOOptions) - Constructor for class mgui.io.foreign.caret.CaretAreaColourOutDialogBox
 
CaretAreaColourOutputOptions - Class in mgui.io.foreign.caret
Options for outputting a DiscreteColourMap as a Caret areacolor file.
CaretAreaColourOutputOptions() - Constructor for class mgui.io.foreign.caret.CaretAreaColourOutputOptions
 
CaretAreaColourWriter - Class in mgui.io.foreign.caret
Writes a DiscreteColourMap to a Caret area colour file, which associates colours (RGB) with names.
CaretAreaColourWriter() - Constructor for class mgui.io.foreign.caret.CaretAreaColourWriter
 
CaretMetricInDialogBox - Class in mgui.io.foreign.caret
 
CaretMetricInDialogBox() - Constructor for class mgui.io.foreign.caret.CaretMetricInDialogBox
 
CaretMetricInDialogBox(JFrame, InterfaceIOPanel, InterfaceIOOptions) - Constructor for class mgui.io.foreign.caret.CaretMetricInDialogBox
 
CaretMetricInOptions - Class in mgui.io.foreign.caret
 
CaretMetricInOptions() - Constructor for class mgui.io.foreign.caret.CaretMetricInOptions
 
CaretMetricLoader - Class in mgui.io.foreign.caret
 
CaretMetricLoader() - Constructor for class mgui.io.foreign.caret.CaretMetricLoader
 
CaretMetricLoader(File) - Constructor for class mgui.io.foreign.caret.CaretMetricLoader
 
CaretMetricLoader.Header - Class in mgui.io.foreign.caret
 
CaretMetricOptions - Class in mgui.io.foreign.caret
Options for a Caret metric file.
CaretMetricOptions() - Constructor for class mgui.io.foreign.caret.CaretMetricOptions
 
CaretMetricOptionsDialog - Class in mgui.io.foreign.caret
 
CaretMetricOptionsDialog(JFrame, InterfaceDialogUpdater, int) - Constructor for class mgui.io.foreign.caret.CaretMetricOptionsDialog
 
CaretPaintInDialogBox - Class in mgui.io.foreign.caret
 
CaretPaintInDialogBox() - Constructor for class mgui.io.foreign.caret.CaretPaintInDialogBox
 
CaretPaintInDialogBox(JFrame, InterfaceIOPanel, InterfaceIOOptions) - Constructor for class mgui.io.foreign.caret.CaretPaintInDialogBox
 
CaretPaintInOptions - Class in mgui.io.foreign.caret
 
CaretPaintInOptions() - Constructor for class mgui.io.foreign.caret.CaretPaintInOptions
 
CaretPaintLoader - Class in mgui.io.foreign.caret
Loads a Caret Paint file From Caret site: tag-version 1 tag-number-of-nodes 71723 tag-number-of-columns 5 tag-title tag-number-of-paint-names 148 tag-column-name 0 Lobes tag-column-name 1 Geography tag-column-name 2 Functional Stuff tag-column-name 3 Brodmann tag-column-name 4 Modality tag-BEGIN-DATA 0 ??? 1 SUL 2 DEEP_SUL ...
CaretPaintLoader() - Constructor for class mgui.io.foreign.caret.CaretPaintLoader
 
CaretPaintLoader(File) - Constructor for class mgui.io.foreign.caret.CaretPaintLoader
 
CaretPaintLoader(URL) - Constructor for class mgui.io.foreign.caret.CaretPaintLoader
 
CaretPaintLoader.Header - Class in mgui.io.foreign.caret
 
CaretPaintOptions - Class in mgui.io.foreign.caret
Deprecated.
use CaretPaintInOptions or CaretPaintOutOptions
CaretPaintOptions() - Constructor for class mgui.io.foreign.caret.CaretPaintOptions
Deprecated.
 
CaretPaintOptionsDialog - Class in mgui.io.foreign.caret
Deprecated.
use CaretPaintInDialogBox or CaretPaintOutDialogBox
CaretPaintOptionsDialog(JFrame, InterfaceDialogUpdater) - Constructor for class mgui.io.foreign.caret.CaretPaintOptionsDialog
Deprecated.
 
CaretPaintOutOptions - Class in mgui.io.foreign.caret
 
CaretPaintOutOptions() - Constructor for class mgui.io.foreign.caret.CaretPaintOutOptions
 
CaretPaintWriter - Class in mgui.io.foreign.caret
Writes a set of vertex-wise data columns to Caret paint files, binary format version 1.
CaretPaintWriter() - Constructor for class mgui.io.foreign.caret.CaretPaintWriter
 
CaretSurfaceInDialogBox - Class in mgui.io.foreign.caret
Dialog box for inputting a Caret format surface, comprised of "topo" and "coord" files.
CaretSurfaceInDialogBox() - Constructor for class mgui.io.foreign.caret.CaretSurfaceInDialogBox
 
CaretSurfaceInDialogBox(JFrame, InterfaceIOPanel, InterfaceIOOptions) - Constructor for class mgui.io.foreign.caret.CaretSurfaceInDialogBox
 
CaretSurfaceInfo - Class in mgui.io.foreign.caret
 
CaretSurfaceInfo() - Constructor for class mgui.io.foreign.caret.CaretSurfaceInfo
 
CaretSurfaceInOptions - Class in mgui.io.foreign.caret
Options specifying how to read a Caret surface
CaretSurfaceInOptions() - Constructor for class mgui.io.foreign.caret.CaretSurfaceInOptions
 
CaretSurfaceLoader - Class in mgui.io.foreign.caret
Loads a Caret surface from topology and coordinate files, in either binary or ASCII format.
CaretSurfaceLoader() - Constructor for class mgui.io.foreign.caret.CaretSurfaceLoader
 
CaretSurfaceLoader(File) - Constructor for class mgui.io.foreign.caret.CaretSurfaceLoader
Instantiates a new loader with the given topo file, with format FORMAT_BINARY.
CaretSurfaceLoader(File, File) - Constructor for class mgui.io.foreign.caret.CaretSurfaceLoader
Instantiates a new loader with the given topo and coord files, with format FORMAT_BINARY.
CaretSurfaceLoader(File, File, int) - Constructor for class mgui.io.foreign.caret.CaretSurfaceLoader
Instantiates a new loader with the given topo and coord files, and the specified format (one of FORMAT_BINARY=0, FORMAT_ASCII=1).
CaretSurfaceOutDialogBox - Class in mgui.io.foreign.caret
Opotions dialog box for a Caret surface write operation.
CaretSurfaceOutDialogBox() - Constructor for class mgui.io.foreign.caret.CaretSurfaceOutDialogBox
 
CaretSurfaceOutDialogBox(JFrame, InterfaceIOPanel, InterfaceIOOptions) - Constructor for class mgui.io.foreign.caret.CaretSurfaceOutDialogBox
 
CaretSurfaceOutOptions - Class in mgui.io.foreign.caret
 
CaretSurfaceOutOptions() - Constructor for class mgui.io.foreign.caret.CaretSurfaceOutOptions
 
CaretSurfaceWriter - Class in mgui.io.foreign.caret
Writes a mesh to Caret format (two files, topo and coord)
CaretSurfaceWriter() - Constructor for class mgui.io.foreign.caret.CaretSurfaceWriter
 
CaretSurfaceWriter(File) - Constructor for class mgui.io.foreign.caret.CaretSurfaceWriter
 
CaretSurfaceWriter(File, File) - Constructor for class mgui.io.foreign.caret.CaretSurfaceWriter
 
CaretSurfaceWriter(CaretSurfaceOutOptions) - Constructor for class mgui.io.foreign.caret.CaretSurfaceWriter
 
Cartesian - mgui.interfaces.plots.sgt.SgtPlotLayout.GraphType
 
cat() - Constructor for class mgui.interfaces.unix.UnixFunctions.cat
 
categories - Variable in class mgui.interfaces.layouts.CategoryLayout
 
categories - Variable in class mgui.interfaces.tools.InterfaceTool2DPanel
Deprecated.
 
category - Variable in class mgui.interfaces.layouts.CategoryLayoutConstraints
 
category - Variable in class mgui.interfaces.layouts.CategoryTitle
 
category_attributes - Variable in class mgui.interfaces.attributes.AttributeList
 
categoryHeight - Variable in class mgui.interfaces.layouts.CategoryLayout
 
CategoryLayout - Class in mgui.interfaces.layouts
Extends LineLayout to provide collapsible categories.
CategoryLayout() - Constructor for class mgui.interfaces.layouts.CategoryLayout
 
CategoryLayout(int, int, int, int) - Constructor for class mgui.interfaces.layouts.CategoryLayout
 
CategoryLayout(int, int, int, int, int) - Constructor for class mgui.interfaces.layouts.CategoryLayout
 
CategoryLayoutConstraints - Class in mgui.interfaces.layouts
Extension of to include a category identifier String.
CategoryLayoutConstraints() - Constructor for class mgui.interfaces.layouts.CategoryLayoutConstraints
 
CategoryLayoutConstraints(String, int, int, double, double, double) - Constructor for class mgui.interfaces.layouts.CategoryLayoutConstraints
 
CategoryObject - Interface in mgui.interfaces.layouts
 
categorySpacing - Variable in class mgui.interfaces.layouts.CategoryLayout
 
CategoryTitle - Class in mgui.interfaces.layouts
A title for a category using the CategoryLayout layout.
CategoryTitle(String) - Constructor for class mgui.interfaces.layouts.CategoryTitle
 
CategoryTitle(String, String) - Constructor for class mgui.interfaces.layouts.CategoryTitle
 
CategoryTitle(String, String, boolean) - Constructor for class mgui.interfaces.layouts.CategoryTitle
 
ceil(double, double) - Static method in class mgui.util.MathFunctions
Rounds m up to the next multiple of n
ceilToOdd(double) - Static method in class mgui.numbers.NumberFunctions
 
CELL_WIDTH - Static variable in class mgui.interfaces.attributes.tree.AttributeTreeCellRenderer
 
center - Variable in class mgui.geometry.mesh.EnergySphere
 
center - Variable in class mgui.geometry.Sphere3D
 
center_of_mass - Variable in class mgui.geometry.neuro.mesh.ScalpAndSkullModelOptions
 
CenterChanged - mgui.interfaces.events.CameraEvent.EventType
 
CENTERED - Static variable in class mgui.util.ImageFunctions
 
centerOfRotation - Variable in class mgui.interfaces.maps.Camera3D
 
centerOnPoint(Point2f) - Method in class mgui.interfaces.maps.Map2D
 
centerOnPoint(Point3f) - Method in class mgui.interfaces.graphics.InterfaceGraphic3D
 
centerPt - Variable in class mgui.geometry.Circle2D
 
centerPt - Variable in class mgui.interfaces.maps.Map3D
 
centerPt - Variable in class mgui.interfaces.shapes.Shape2DInt
 
centerPt - Variable in class mgui.interfaces.shapes.Shape3DInt
 
centerSectionAt(Point2f) - Method in class mgui.interfaces.graphics.InterfaceGraphic2D
Centers the section at the specified 2D point
centerSectionAt(Point3f) - Method in class mgui.interfaces.graphics.InterfaceGraphic2D
Centers the section at the specified 3D point, projected onto its plane
centre - Variable in class au.edu.unsw.cse.Object3dAdaptor
 
centre() - Method in interface au.edu.unsw.cse.Object3d
 
centre() - Method in class au.edu.unsw.cse.Object3dAdaptor
 
centre() - Method in class au.edu.unsw.cse.Point3dObject3d
 
change_listeners - Variable in class mgui.interfaces.stats.HistogramPlot
 
changed_names - Variable in class mgui.interfaces.datasources.EditDataTableDialog
 
changedUpdate(DocumentEvent) - Method in class mgui.interfaces.shapes.volume.InterfaceVolumePanel
 
changedUpdate(DocumentEvent) - Method in class mgui.interfaces.shapes.volume.InterfaceVolumeSetPanel
DocumentListener methods
ChangeSectionVideoTask - Class in mgui.interfaces.shapes.video
Video task which changes the current section, either once or multiple times over an interval.
ChangeSectionVideoTask() - Constructor for class mgui.interfaces.shapes.video.ChangeSectionVideoTask
 
ChangeSectionVideoTask(int, int, InterfaceGraphic2D, int, int) - Constructor for class mgui.interfaces.shapes.video.ChangeSectionVideoTask
Instantiates this task with the given arguments.
ChangeSectionVideoTaskDialogPanel - Class in mgui.interfaces.shapes.video
Dialog panel for a ChangeSectionVideoTask.
ChangeSectionVideoTaskDialogPanel() - Constructor for class mgui.interfaces.shapes.video.ChangeSectionVideoTaskDialogPanel
 
ChangeSectionVideoTaskDialogPanel(ChangeSectionVideoTask) - Constructor for class mgui.interfaces.shapes.video.ChangeSectionVideoTaskDialogPanel
 
channels - Variable in class mgui.image.util.WindowedColourModel
 
CHAR - Static variable in class mgui.datasources.DataTypes
 
characters(char[], int, int) - Method in class mgui.io.domestic.attributes.AttributeXMLHandler
 
characters(char[], int, int) - Method in class mgui.io.domestic.datasources.DataSourceXMLHandler
 
characters(char[], int, int) - Method in class mgui.io.domestic.network.CorticalNetworkXMLHandler
 
characters(char[], int, int) - Method in class mgui.io.domestic.pipelines.PipelineProcessLibraryXMLHandler
 
characters(char[], int, int) - Method in class mgui.io.domestic.pipelines.PipelineXMLHandler
 
characters(char[], int, int) - Method in class mgui.io.domestic.pipelines.TaskXMLHandler
 
characters(char[], int, int) - Method in class mgui.io.domestic.shapes.xml.InterfaceShapeXMLHandler
 
characters(char[], int, int) - Method in class mgui.io.domestic.shapes.xml.SectionSet3DXMLHandler
 
characters(char[], int, int) - Method in class mgui.io.domestic.shapes.xml.ShapeModel3DXMLHandler
 
characters(char[], int, int) - Method in class mgui.io.domestic.shapes.xml.ShapeSet2DXMLHandler
 
characters(char[], int, int) - Method in class mgui.io.domestic.shapes.xml.ShapeSet3DXMLHandler
 
characters(char[], int, int) - Method in class mgui.io.foreign.camino.xml.CaminoProjectXMLHandler
 
characters(char[], int, int) - Method in class mgui.io.standard.gifti.xml.GiftiXMLHandler
 
checkHeader() - Method in class mgui.io.standard.nifti.Nifti1Dataset
Check the header fields for valid settings
child_left - Variable in class mgui.geometry.util.K3DBinaryTree.K3DNode
 
child_right - Variable in class mgui.geometry.util.K3DBinaryTree.K3DNode
 
child3D - Variable in class mgui.interfaces.shapes.Shape2DInt
 
children2D - Variable in class mgui.interfaces.shapes.Shape3DInt
 
childSets - Variable in class mgui.interfaces.graphics.InterfaceGraphic2D
 
CHK_ALLSECT - Static variable in class mgui.morph.sections.InterfaceMorphPanel
 
CHK_ALLSECT - Static variable in class mgui.morph.sections.InterfaceMorphPanel2
 
CHK_ALLSELSET - Static variable in class mgui.morph.sections.InterfaceMorphPanel
 
CHK_ALLSELSET - Static variable in class mgui.morph.sections.InterfaceMorphPanel2
 
CHK_ALLSHAPES - Static variable in class mgui.morph.sections.InterfaceMorphPanel
 
CHK_ALLSHAPES - Static variable in class mgui.morph.sections.InterfaceMorphPanel2
 
CHK_SEL - Static variable in class mgui.interfaces.shapes.mesh.InterfaceMeshPanel
 
CHK_SELSET - Static variable in class mgui.morph.sections.InterfaceMorphPanel
 
CHK_SELSET - Static variable in class mgui.morph.sections.InterfaceMorphPanel2
 
CHK_SPECSECT - Static variable in class mgui.morph.sections.InterfaceMorphPanel
 
CHK_SPECSECT - Static variable in class mgui.morph.sections.InterfaceMorphPanel2
 
chkAddToCurrent - Variable in class mgui.io.domestic.shapes.PointSet3DInputDialogBox
 
chkAddToCurrent - Variable in class mgui.io.domestic.shapes.VectorSet3DInputDialogBox
 
chkMergeShapes - Variable in class mgui.io.domestic.shapes.SurfaceInputDialogBox
 
chkNewShapeSet - Variable in class mgui.io.domestic.shapes.PolygonSet3DInputDialogBox
 
ci - Variable in class au.edu.unsw.cse.QuadMesh3d
 
circle - Variable in class mgui.morph.sections.RadialRep2D
 
Circle2D - Class in mgui.geometry
Represents a 2D circle.
Circle2D() - Constructor for class mgui.geometry.Circle2D
 
Circle2D(float, float, float) - Constructor for class mgui.geometry.Circle2D
 
Circle2D(Point2f, float) - Constructor for class mgui.geometry.Circle2D
 
Circle2DInt - Class in mgui.interfaces.shapes
 
Circle2DInt() - Constructor for class mgui.interfaces.shapes.Circle2DInt
 
Circle2DInt(Circle2D) - Constructor for class mgui.interfaces.shapes.Circle2DInt
 
cj - Variable in class au.edu.unsw.cse.QuadMesh3d
 
ClassFunctions - Class in mgui.classes
Set of functions on classes
ClassFunctions() - Constructor for class mgui.classes.ClassFunctions
 
className - Variable in class mgui.datasources.DataSourceDriver
 
clean() - Method in class mgui.interfaces.AbstractInterfaceObject
 
clean() - Method in class mgui.interfaces.graphs.InterfaceAbstractGraph
 
clean() - Method in class mgui.interfaces.InterfaceOptions
 
clean() - Method in class mgui.interfaces.InterfacePanel
 
clean() - Method in class mgui.interfaces.io.InterfaceFile
 
clean() - Method in class mgui.interfaces.plots.mgui.PlotMap2D
 
clean() - Method in class mgui.interfaces.plots.sgt.SgtPlotLayout
 
clean() - Method in class mgui.interfaces.queries.InterfaceQuery
 
clean() - Method in class mgui.interfaces.tables.InterfaceTableModel
 
clean() - Method in interface mgui.interfaces.util.CleanableObject
Instructs this object to search its members for any object which has been destroyed, and release the pointer to it.
clean() - Method in class mgui.pipelines.PipelineProcess
 
clean() - Method in class mgui.pipelines.TaskParameterInstance
 
CleanableObject - Interface in mgui.interfaces.util
An object that can be cleaned; i.e., for destroyed fields which should be released
cleanInterfaceObject(InterfaceObject) - Static method in class mgui.interfaces.util.InterfaceFunctions
Cleans up the members of this object; i.e., searches for destroyed objects and releases them.
cleanMesh(Mesh3D) - Static method in class mgui.geometry.mesh.MeshFunctions
 
cleanTreeNodes() - Method in class mgui.interfaces.shapes.InterfaceShape
TREE NODE STUFF
cleanTreeNodes() - Method in class mgui.interfaces.shapes.ShapeModel3D
 
cleanUpPanel() - Method in class mgui.interfaces.InterfacePanel
Cleans up the panel's data when it loses focus.
cleanUpPanel() - Method in class mgui.interfaces.io.InterfaceFilePanel
 
cleanUpPanel() - Method in class mgui.interfaces.neuro.InterfaceCorticalThicknessPanel
 
cleanUpPanel() - Method in class mgui.interfaces.shapes.InterfaceShapesPanel
 
cleanUpPanel() - Method in class mgui.interfaces.shapes.mesh.InterfaceMeshPanel
 
cleanUpPanel() - Method in class mgui.interfaces.shapes.volume.InterfaceVolumePanel
 
clear() - Method in class au.edu.unsw.cse.View3d
 
clear() - Method in class mgui.geometry.Mesh3D
 
clear() - Method in class mgui.geometry.PointSet3D
 
clear() - Method in class mgui.interfaces.Clipboard
Clears the current content
clear() - Method in class mgui.interfaces.maps.NameMap
 
clear() - Method in class mgui.interfaces.queries.QueryResultPanel
 
clear() - Method in class mgui.interfaces.shapes.InterfaceShapesPanel.VertexSelectionTableModel
 
clear() - Method in class mgui.interfaces.shapes.mesh.VertexSelection
 
clear2DChildren() - Method in class mgui.interfaces.shapes.Shape3DInt
Clears the currently set 2D children for this shape
clearCache() - Method in class mgui.datasources.LinkedDataStream
 
clearCurrentTool() - Method in class mgui.interfaces.tools.shapes.util.RulerDialog
Clears the current tool, allowing other tools to use it
clearData() - Method in class mgui.interfaces.plots.sgt.SgtPlotLayout
Removes all graph data from this layout.
clearListeners() - Method in class mgui.interfaces.graphics.InterfaceGraphicWindow.GraphicButton
 
clearMask(String) - Method in class mgui.interfaces.shapes.Volume3DInt
 
clearNodes() - Method in class mgui.interfaces.tools.shapes.ToolQueryShape3D
 
clearNodes() - Method in class mgui.interfaces.tools.shapes.ToolSelectShape3D
 
clearPostRenderShapes() - Method in class mgui.interfaces.graphics.InterfaceCanvas3D
 
clearPostRenderShapes() - Method in class mgui.interfaces.graphics.PostRenderingCanvas3D
 
clearResults() - Method in class mgui.interfaces.queries.InterfaceQuery
Clears the results currently stored in this query.
clearTempShapes() - Method in class mgui.interfaces.graphics.InterfaceGraphic2D
Remove all temporary shapes from the stack
clearTempShapes() - Method in class mgui.interfaces.shapes.ShapeModel3D
 
clearVertices() - Method in class mgui.interfaces.shapes.queries.InterfaceShapeQuery
 
clearWindows() - Method in class mgui.interfaces.shapes.ShapeSet3DInt
 
clearWorkingSelection() - Method in class mgui.interfaces.shapes.ShapeModel3D
 
clip_planes - Variable in class mgui.interfaces.shapes.SectionSet3DInt
 
Clipboard - Class in mgui.interfaces
Acts as a clipboard for the current InterfaceSession.
Clipboard() - Constructor for class mgui.interfaces.Clipboard
 
Clipboard.Item - Class in mgui.interfaces
 
ClipModified - mgui.interfaces.shapes.util.ShapeEvent.EventType
 
ClipPlane - Class in mgui.interfaces.shapes.util
Class specifies a clipping region around a plane, with back and front clip distances.
ClipPlane(Plane3D, float, float) - Constructor for class mgui.interfaces.shapes.util.ClipPlane
 
CLOB - Static variable in class mgui.datasources.DataTypes
 
clock - Variable in class mgui.interfaces.graphics.video.Video
 
clock - Variable in class mgui.models.dynamic.DynamicModelEngine
 
clock - Variable in class mgui.models.environments.AbstractEnvironmentDataSource
 
clock - Variable in class mgui.models.environments.SimpleEnvironment
 
clock - Variable in class mgui.models.updaters.PulseTrainUpdater
 
clock - Variable in class mgui.neuro.components.AbstractNeuroComponent
 
clock - Variable in class mgui.neuro.updaters.PulseTrainUpdater
 
clock_start - Static variable in class mgui.command.CommandInterpreter
 
ClockChanged(VideoEvent) - Method in class mgui.interfaces.graphics.InterfaceGraphicPanel
 
ClockChanged(VideoEvent) - Method in interface mgui.interfaces.graphics.video.VideoListener
 
ClockLagged(VideoEvent, long) - Method in class mgui.interfaces.graphics.InterfaceGraphicPanel
 
ClockLagged(VideoEvent, long) - Method in interface mgui.interfaces.graphics.video.VideoListener
 
ClockStarted(VideoEvent) - Method in class mgui.interfaces.graphics.InterfaceGraphicPanel
 
ClockStarted(VideoEvent) - Method in interface mgui.interfaces.graphics.video.VideoListener
 
ClockStopped(VideoEvent) - Method in class mgui.interfaces.graphics.InterfaceGraphicPanel
 
ClockStopped(VideoEvent) - Method in interface mgui.interfaces.graphics.video.VideoListener
 
clockwise - Variable in class mgui.interfaces.util.VerticalLabelUI
 
Clockwise - mgui.geometry.polygon.PolygonFunctions.PolyDirection
 
clone() - Method in class au.edu.unsw.cse.View3d
 
clone() - Method in class mgui.datasources.DataConnection
 
clone() - Method in class mgui.datasources.DataField
 
clone() - Method in class mgui.datasources.DataIndex
 
clone() - Method in class mgui.datasources.DataSource
 
clone() - Method in class mgui.datasources.DataSourceDriver
 
clone() - Method in class mgui.datasources.DataTable
 
clone() - Method in class mgui.datasources.mysql.MySQLDriver
 
clone() - Method in class mgui.datasources.odbc.JdbcOdbcDriver
 
clone() - Method in class mgui.datasources.postgresql.PostgreSQLDriver
 
clone() - Method in class mgui.datasources.tinysql.TinySQLDriver
 
clone() - Method in class mgui.geometry.Box3D
 
clone() - Method in class mgui.geometry.Circle2D
 
clone() - Method in class mgui.geometry.Grid3D
 
clone() - Method in class mgui.geometry.LineSegment2D
 
clone() - Method in class mgui.geometry.Mesh3D
 
clone() - Method in class mgui.geometry.Plane3D
 
clone() - Method in class mgui.geometry.PointSet3D
T must be 4 x 4 transformation matrix public boolean transform(Matrix T){ for (int i = 0; i < n; i++){ Matrix node = arMath.getMatrixFromPoint3d(new Point3d(getNode(i))); node = node.transpose().times(T); Point3f p = new Point3f(arMath.getPoint3dFromMatrix(node)); this.setNode(i, p); } }
clone() - Method in class mgui.geometry.Polygon2D
 
clone() - Method in class mgui.geometry.Radius2D
 
clone() - Method in class mgui.geometry.Rect2D
 
clone() - Method in class mgui.geometry.Shape2D
 
clone() - Method in class mgui.geometry.Shape3D
 
clone() - Method in class mgui.geometry.Text2D
 
clone() - Method in class mgui.geometry.Vector3D
 
clone() - Method in class mgui.image.util.WindowedColourModel
 
clone() - Method in class mgui.interfaces.attributes.Attribute
 
clone() - Method in class mgui.interfaces.attributes.AttributeList
 
clone() - Method in class mgui.interfaces.attributes.tree.AttributeTreeNode
 
clone() - Method in class mgui.interfaces.attributes.video.AttributeObjectVideoTask
 
clone() - Method in class mgui.interfaces.graphics.video.RotateView3DTask
 
clone() - Method in class mgui.interfaces.graphics.video.SetView3DTask
 
clone() - Method in class mgui.interfaces.graphics.video.VideoTask
 
clone() - Method in class mgui.interfaces.graphs.AbstractGraphEdge
 
clone() - Method in class mgui.interfaces.graphs.AbstractGraphNode
 
clone() - Method in class mgui.interfaces.graphs.DefaultGraph
 
clone() - Method in class mgui.interfaces.graphs.DefaultGraphEdge
 
clone() - Method in class mgui.interfaces.graphs.DefaultGraphNode
 
clone() - Method in class mgui.interfaces.graphs.InterfaceAbstractGraph
 
clone() - Method in class mgui.interfaces.maps.ColourMap
 
clone() - Method in class mgui.interfaces.maps.ContinuousColourBar
 
clone() - Method in class mgui.interfaces.maps.ContinuousColourMap
 
clone() - Method in class mgui.interfaces.maps.DiscreteColourMap
 
clone() - Method in class mgui.interfaces.projects.InterfaceProject
 
clone() - Method in class mgui.interfaces.projects.ProjectDataItem
 
clone() - Method in class mgui.interfaces.projects.ProjectDirectory
 
clone() - Method in class mgui.interfaces.shapes.Image2DInt
 
clone() - Method in class mgui.interfaces.shapes.LPolygon2DInt
 
clone() - Method in class mgui.interfaces.shapes.Polygon2DInt
 
clone() - Method in class mgui.interfaces.shapes.Rect2DInt
 
clone() - Method in class mgui.interfaces.shapes.Shape2DInt
 
clone() - Method in class mgui.interfaces.shapes.trees.Shape2DTreeNode
 
clone() - Method in class mgui.interfaces.shapes.trees.Shape3DTreeNode
 
clone() - Method in class mgui.interfaces.shapes.video.ChangeSectionVideoTask
 
clone() - Method in class mgui.interfaces.tools.datasources.ToolDataSource
 
clone() - Method in class mgui.interfaces.tools.dialogs.DialogTool
 
clone() - Method in class mgui.interfaces.tools.graphics.Tool2D
 
clone() - Method in class mgui.interfaces.tools.graphics.Tool3D
 
clone() - Method in class mgui.interfaces.tools.graphics.ToolDefine3DGrid2D
 
clone() - Method in class mgui.interfaces.tools.graphics.ToolDZoom2D
 
clone() - Method in class mgui.interfaces.tools.graphics.ToolMouseOrbit3D
 
clone() - Method in class mgui.interfaces.tools.graphics.ToolPan2D
 
clone() - Method in class mgui.interfaces.tools.graphics.ToolWindowZoom2D
 
clone() - Method in class mgui.interfaces.tools.graphics.ToolZoomExt2D
 
clone() - Method in class mgui.interfaces.tools.graphs.ToolGraph
 
clone() - Method in class mgui.interfaces.tools.graphs.ToolGraphImage
 
clone() - Method in class mgui.interfaces.tools.graphs.ToolGraphTransform
 
clone() - Method in class mgui.interfaces.tools.layouts.ToolLayout2D
 
clone() - Method in class mgui.interfaces.tools.plots.ToolPlot
 
clone() - Method in class mgui.interfaces.tools.shapes.ToolCreateEllipse2D
 
clone() - Method in class mgui.interfaces.tools.shapes.ToolCreateImage2D
 
clone() - Method in class mgui.interfaces.tools.shapes.ToolCreateImage3D
 
clone() - Method in class mgui.interfaces.tools.shapes.ToolCreateMeshFromPolylines
 
clone() - Method in class mgui.interfaces.tools.shapes.ToolCreatePolygon2D
 
clone() - Method in class mgui.interfaces.tools.shapes.ToolCreateRect2D
 
clone() - Method in class mgui.interfaces.tools.shapes.ToolCutMeshWithPlane
 
clone() - Method in class mgui.interfaces.tools.shapes.ToolGetConvexHull2D
 
clone() - Method in class mgui.interfaces.tools.shapes.ToolGetMeshIntersectionPolylines
 
clone() - Method in class mgui.interfaces.tools.shapes.ToolQueryShape2D
 
clone() - Method in class mgui.interfaces.tools.shapes.ToolQueryShape3D
 
clone() - Method in class mgui.interfaces.tools.shapes.ToolReversePolygon2D
 
clone() - Method in class mgui.interfaces.tools.shapes.ToolRuler2D
 
clone() - Method in class mgui.interfaces.tools.shapes.ToolSelectMeshBoundaryNodes
 
clone() - Method in class mgui.interfaces.tools.shapes.ToolSelectNodesWithPolygon
 
clone() - Method in class mgui.interfaces.tools.shapes.ToolSelectRegionBoundaryNodes
 
clone() - Method in class mgui.interfaces.tools.shapes.ToolSelectShape2D
 
clone() - Method in class mgui.interfaces.tools.shapes.ToolSelectShape3D
 
clone() - Method in class mgui.interfaces.tools.shapes.ToolTestInternalPoint2D
 
clone() - Method in interface mgui.interfaces.tools.Tool
 
clone() - Method in class mgui.interfaces.trees.InterfaceTreeNode
 
clone() - Method in interface mgui.models.dynamic.DynamicModelComponent
 
clone() - Method in class mgui.models.dynamic.functions.Function
 
clone() - Method in class mgui.models.environments.SimpleEnvironment
 
clone() - Method in class mgui.models.networks.AbstractNetworkModel
 
clone() - Method in class mgui.models.networks.components.AbstractNetworkComponent
 
clone() - Method in class mgui.morph.sections.AttributeNode2D
 
clone() - Method in class mgui.morph.sections.MappedPolygon2D
 
clone() - Method in class mgui.morph.sections.MapWeight
 
clone() - Method in class mgui.morph.sections.MorphNode2D
 
clone() - Method in class mgui.morph.sections.NodeMap2D
 
clone() - Method in class mgui.neuro.components.AbstractNeuroComponent
 
clone() - Method in class mgui.neuro.components.AbstractNeuronalComponent
 
clone() - Method in class mgui.neuro.components.compartments.AbstractCompartment
 
clone() - Method in class mgui.neuro.components.compartments.CompartmentalComponent
 
clone() - Method in class mgui.neuro.components.cortical.AbstractCorticalConnection
 
clone() - Method in class mgui.neuro.components.cortical.AbstractCorticalOutput
 
clone() - Method in class mgui.neuro.components.cortical.CorticalVolume
 
clone() - Method in class mgui.neuro.components.cortical.functions.MorrisLecarFunction
 
clone() - Method in class mgui.neuro.components.cortical.simple.SimpleCorticalRegion
 
clone() - Method in class mgui.neuro.components.CorticalVolume
 
clone() - Method in class mgui.neuro.components.simple.SimpleAxon
 
clone() - Method in class mgui.neuro.components.simple.SimpleDendrite
 
clone() - Method in class mgui.neuro.components.simple.SimpleDendrites
 
clone() - Method in class mgui.neuro.components.simple.SimpleMotorNeuron
 
clone() - Method in class mgui.neuro.components.simple.SimpleNeuron
 
clone() - Method in class mgui.neuro.components.simple.SimpleSensoryNeuron
 
clone() - Method in class mgui.neuro.components.simple.SimpleSoma
 
clone() - Method in class mgui.neuro.components.simple.SimpleSynapse
 
clone() - Method in class mgui.neuro.networks.CorticalNetwork
 
clone() - Method in class mgui.neuro.networks.KohonenNet
 
clone() - Method in class mgui.neuro.networks.PerceptronNet
 
clone() - Method in class mgui.numbers.MguiBoolean
 
clone() - Method in class mgui.numbers.MguiDouble
 
clone() - Method in class mgui.numbers.MguiFloat
 
clone() - Method in class mgui.numbers.MguiInteger
 
clone() - Method in class mgui.numbers.MguiLong
 
clone() - Method in interface mgui.numbers.MguiNumber
 
clone() - Method in class mgui.numbers.MguiShort
 
clone() - Method in class mgui.pipelines.InterfacePipeline
 
clone() - Method in class mgui.pipelines.JavaProcess
 
clone() - Method in class mgui.pipelines.NativeProcess
 
clone() - Method in class mgui.pipelines.PipelineProcess
 
clone() - Method in class mgui.pipelines.PipelineProcessInstance
 
clone() - Method in class mgui.pipelines.PipelineTask
 
clone() - Method in class mgui.pipelines.TaskParameter
 
cloneNode(boolean) - Method in class mgui.interfaces.shapes.Shape2DSectionNode
 
close - Variable in class mgui.interfaces.tools.shapes.ToolCreatePolygon2D
 
close() - Method in class mgui.datasources.DataRecordSet
 
close() - Method in class mgui.interfaces.InterfaceDisplayPanel
Called when this display panel is closed
close() - Method in class mgui.interfaces.io.DataBridge
 
close() - Method in interface mgui.interfaces.io.DataInputStream
Closes this stream.
close() - Method in interface mgui.interfaces.io.DataOutputStream
Closes this output stream.
close() - Method in class mgui.io.domestic.variables.DefaultMatrixFileWriter
 
close() - Method in class mgui.io.util.BufferedRandomAccessFile
 
close() - Method in class mgui.io.util.ParallelOutputStream
 
close() - Method in class mgui.pipelines.PipelineState.ErrorStreamListener
 
Close - Class in mgui.io.standard.xml.svg
 
Close(SVGParser.Mode) - Constructor for class mgui.io.standard.xml.svg.Close
 
closed - Variable in class mgui.interfaces.io.DataBridge
 
closedIcon - Variable in class mgui.interfaces.attributes.tree.NonPrivateDefaultTreeCellRenderer
Icon used to show non-leaf nodes that aren't expanded.
closest_vertex - Variable in class mgui.interfaces.graphics.util.PickInfoShape2D
 
Cm - Variable in class mgui.neuro.components.compartments.SimpleCompartment
 
cmap - Variable in class mgui.interfaces.shapes.TensorVolume3DInt
 
CMB_DISPLAY_MESH - Static variable in class mgui.interfaces.shapes.mesh.InterfaceMeshPanel
 
CMB_NONE - Static variable in class mgui.interfaces.shapes.InterfaceShapesPanel
 
CMB_NONE - Static variable in class mgui.interfaces.shapes.mesh.InterfaceMeshPanel
 
CMB_SECTIONS - Variable in class mgui.interfaces.shapes.InterfaceSectionSetPanel
 
CMB_SOURCE_WIN - Variable in class mgui.interfaces.graphics.InterfaceGraphicPanel
 
CMB_WINDOWS - Variable in class mgui.interfaces.shapes.InterfaceSectionSetPanel
 
cmbColourMap - Variable in class mgui.io.foreign.caret.CaretAreaColourOutDialogBox
 
cmbCurvatureMethod - Variable in class mgui.interfaces.shapes.mesh.InterfaceMeshPanel
 
cmbMesh - Variable in class mgui.io.domestic.shapes.SurfaceDataInputDialogBox
 
cmbPointSet - Variable in class mgui.io.domestic.shapes.PointSet3DDataInputDialogBox
 
cmbShapeSet - Variable in class mgui.io.domestic.shapes.ShapeInputDialogBox
 
cmbShapeSet - Variable in class mgui.io.domestic.shapes.SurfaceInputDialogBox
 
CMD_ADD_WIN - Variable in class mgui.interfaces.graphics.InterfaceGraphicPanel
 
CMD_APPLY_WIN - Variable in class mgui.interfaces.graphics.InterfaceGraphicPanel
 
CMD_ASSIGN_CORNERS - Variable in class mgui.morph.sections.InterfaceRadialRep
 
CMD_ASSIGN_CORNERS - Variable in class mgui.morph.sections.InterfaceRadialRep2
 
CMD_CHANGE_BOOL - Static variable in class mgui.interfaces.attributes.table.AttributeCellEditor
 
CMD_CHANGE_BOOL - Variable in class mgui.interfaces.attributes.tree.AttributeTreeCellEditor
 
CMD_CHANGE_COLOUR - Static variable in class mgui.interfaces.attributes.table.AttributeCellEditor
 
CMD_CHANGE_COLOUR - Variable in class mgui.interfaces.attributes.tree.AttributeTreeCellEditor
 
CMD_CHANGE_SELECTION - Static variable in class mgui.interfaces.attributes.table.AttributeCellEditor
 
CMD_CHANGE_STROKE - Static variable in class mgui.interfaces.attributes.table.AttributeCellEditor
 
CMD_CHANGE_STROKE - Variable in class mgui.interfaces.attributes.tree.AttributeTreeCellEditor
 
CMD_CHANGE_TEXT - Static variable in class mgui.interfaces.attributes.table.AttributeCellEditor
 
CMD_CHANGE_TEXT - Variable in class mgui.interfaces.attributes.tree.AttributeTreeCellEditor
 
CMD_CHANGE_TYPE - Static variable in class mgui.interfaces.attributes.table.AttributeCellEditor
 
CMD_CHANGE_TYPE - Variable in class mgui.interfaces.attributes.tree.AttributeTreeCellEditor
 
CMD_CORNERS - Static variable in class mgui.morph.sections.InterfaceMorphPanel
 
CMD_CORNERS - Static variable in class mgui.morph.sections.InterfaceMorphPanel2
 
CMD_DECIMATE - Static variable in class mgui.interfaces.shapes.mesh.InterfaceMeshPanel
 
CMD_DOWN_WIN - Variable in class mgui.interfaces.graphics.InterfaceGraphicPanel
 
CMD_EXECUTE - Static variable in class mgui.morph.sections.InterfaceMorphPanel
 
CMD_EXECUTE - Static variable in class mgui.morph.sections.InterfaceMorphPanel2
 
CMD_GEN_CORNERS - Variable in class mgui.morph.sections.InterfaceRadialRep
 
CMD_GEN_CORNERS - Variable in class mgui.morph.sections.InterfaceRadialRep2
 
CMD_GEN_MULTI - Variable in class mgui.morph.sections.InterfaceRadialRep
 
CMD_GEN_MULTI - Variable in class mgui.morph.sections.InterfaceRadialRep2
 
CMD_GEN_SEL - Variable in class mgui.morph.sections.InterfaceRadialRep
 
CMD_GEN_SEL - Variable in class mgui.morph.sections.InterfaceRadialRep2
 
CMD_GROOM_POLY - Variable in class mgui.morph.sections.InterfaceRadialRep
 
CMD_GROOM_POLY - Variable in class mgui.morph.sections.InterfaceRadialRep2
 
CMD_MULTI_INPUT - Static variable in class mgui.interfaces.shapes.mesh.InterfaceMeshPanel
 
CMD_MULTI_INPUT_EM - Static variable in class mgui.interfaces.shapes.mesh.InterfaceMeshPanel
 
CMD_MULTI_OUTPUT - Static variable in class mgui.interfaces.shapes.mesh.InterfaceMeshPanel
 
CMD_MULTI_OUTPUT_EM - Static variable in class mgui.interfaces.shapes.mesh.InterfaceMeshPanel
 
CMD_NEXT - Variable in class mgui.interfaces.shapes.InterfaceSectionSetPanel
 
CMD_NEXT_SUB - Variable in class mgui.interfaces.shapes.InterfaceSectionSetPanel
 
CMD_PREV - Variable in class mgui.interfaces.shapes.InterfaceSectionSetPanel
 
CMD_PREV_SUB - Variable in class mgui.interfaces.shapes.InterfaceSectionSetPanel
 
CMD_REF - Variable in class mgui.interfaces.shapes.InterfaceSectionSetPanel
 
CMD_REF_SOURCE - Variable in class mgui.interfaces.graphics.InterfaceGraphicPanel
 
CMD_REF_SUB - Variable in class mgui.interfaces.shapes.InterfaceSectionSetPanel
 
CMD_REM_WIN - Variable in class mgui.interfaces.graphics.InterfaceGraphicPanel
 
CMD_ROTX - Variable in class mgui.interfaces.shapes.InterfaceSectionSetPanel
 
CMD_ROTY - Variable in class mgui.interfaces.shapes.InterfaceSectionSetPanel
 
CMD_ROTZ - Variable in class mgui.interfaces.shapes.InterfaceSectionSetPanel
 
CMD_SET_SOURCE - Variable in class mgui.interfaces.graphics.InterfaceGraphicPanel
 
CMD_SMOOTH - Static variable in class mgui.interfaces.shapes.mesh.InterfaceMeshPanel
 
CMD_SUBDIVIDE - Static variable in class mgui.interfaces.shapes.mesh.InterfaceMeshPanel
 
CMD_UP_WIN - Variable in class mgui.interfaces.graphics.InterfaceGraphicPanel
 
CMD_UPDATE - Variable in class mgui.interfaces.shapes.InterfaceSectionSetPanel
 
cmdCancel - Variable in class mgui.interfaces.InterfaceDialogBox
 
cmdCurvature - Variable in class mgui.interfaces.shapes.mesh.InterfaceMeshPanel
 
cmdOK - Variable in class mgui.interfaces.InterfaceDialogBox
 
CNR_BL - Static variable in class mgui.geometry.Rect2D
Bottom-left corner
CNR_BR - Static variable in class mgui.geometry.Rect2D
Bottom-right corner
CNR_TL - Static variable in class mgui.geometry.Rect2D
Top-left corner
CNR_TR - Static variable in class mgui.geometry.Rect2D
Top-right corner
code - Variable in class mgui.models.events.SimpleEvent
 
code - Variable in class mgui.neuro.components.simple.SimpleEvent
 
collapseAllCategories() - Method in class mgui.interfaces.InterfacePanel
 
collapseAllCategories() - Method in class mgui.interfaces.layouts.CategoryLayout
 
collapseAllCategories() - Method in interface mgui.interfaces.layouts.CategoryObject
 
collapseCategory(String) - Method in class mgui.interfaces.InterfacePanel
 
collapseCategory(String) - Method in class mgui.interfaces.layouts.CategoryLayout
 
collapseCategory(String) - Method in interface mgui.interfaces.layouts.CategoryObject
 
collapseOtherCategories(String) - Method in class mgui.interfaces.InterfacePanel
 
collapseOtherCategories(String) - Method in class mgui.interfaces.layouts.CategoryLayout
 
collapseOtherCategories(String) - Method in interface mgui.interfaces.layouts.CategoryObject
 
CollectionTreeNode(String, String) - Constructor for class mgui.interfaces.InterfaceWorkspace.CollectionTreeNode
 
color - Static variable in class au.edu.unsw.cse.Axes
 
color - Static variable in class au.edu.unsw.cse.Points3d
 
ColorControl - Class in au.edu.unsw.cse
 
ColorControl(String, String, boolean, Color, int, Viewer) - Constructor for class au.edu.unsw.cse.ColorControl
 
Colormap - Class in mgui.io.foreign.vol
 
Colormap() - Constructor for class mgui.io.foreign.vol.Colormap
 
colors - Variable in class au.edu.unsw.cse.View3d
 
colorSpace - Variable in class mgui.interfaces.shapes.volume.Volume3DTexture
 
colour - Variable in class mgui.interfaces.maps.ContinuousColourMap.Anchor
 
colour - Variable in class mgui.io.standard.xml.svg.SVGPath
 
Colour - Class in mgui.util
 
Colour() - Constructor for class mgui.util.Colour
 
colour_map - Variable in class mgui.io.domestic.shapes.VolumeInputOptions
 
colour_map - Variable in class mgui.io.foreign.caret.CaretAreaColourOutputOptions
 
colour_map - Variable in class mgui.io.foreign.freesurfer.FreesurferVertexDataInOptions
 
colour_map - Variable in class mgui.io.foreign.freesurfer.FreesurferVertexDataLoader
 
colour_model - Variable in class mgui.interfaces.stats.HistogramPlot
 
colour_models - Variable in class mgui.interfaces.shapes.Volume3DInt
 
Colour1f - Class in mgui.util
 
Colour1f() - Constructor for class mgui.util.Colour1f
 
Colour1f(float) - Constructor for class mgui.util.Colour1f
 
Colour2f - Class in mgui.util
 
Colour2f() - Constructor for class mgui.util.Colour2f
 
Colour2f(float, float) - Constructor for class mgui.util.Colour2f
 
Colour3f - Class in mgui.util
 
Colour3f() - Constructor for class mgui.util.Colour3f
 
Colour3f(float, float, float) - Constructor for class mgui.util.Colour3f
 
Colour3f(Color) - Constructor for class mgui.util.Colour3f
 
Colour4f - Class in mgui.util
 
Colour4f() - Constructor for class mgui.util.Colour4f
 
Colour4f(float, float, float, float) - Constructor for class mgui.util.Colour4f
 
Colour4f(Color) - Constructor for class mgui.util.Colour4f
 
ColourBarOutDialog - Class in mgui.interfaces.gui
 
ColourBarOutDialog(JFrame, ContinuousColourMap) - Constructor for class mgui.interfaces.gui.ColourBarOutDialog
 
ColourButton - Class in mgui.interfaces.gui
Overrides renderer to colour component regardless of look and feel.
ColourButton() - Constructor for class mgui.interfaces.gui.ColourButton
 
ColourButton(Color) - Constructor for class mgui.interfaces.gui.ColourButton
 
ColourButton(String) - Constructor for class mgui.interfaces.gui.ColourButton
 
ColourButton(String, Color) - Constructor for class mgui.interfaces.gui.ColourButton
 
ColourButton(String, Color, boolean) - Constructor for class mgui.interfaces.gui.ColourButton
 
ColourButton(String, Color, boolean, boolean) - Constructor for class mgui.interfaces.gui.ColourButton
 
colourFileOptions - Variable in class mgui.io.standard.xml.svg.SVGInputOptions
 
colourMap - Variable in class mgui.image.util.WindowedColourModel
 
colourMap - Variable in class mgui.interfaces.shapes.volume.Volume3DTexture
 
colourMap - Variable in class mgui.io.foreign.vol.VolumeInputOptions
 
colourMap - Variable in class mgui.io.standard.xml.svg.SVGFileInterface
 
ColourMap - Class in mgui.interfaces.maps
Abstract class for mapping values (instances of Comparable) to colours.
ColourMap - mgui.interfaces.shapes.volume.Volume3DTexture.UpdateTextureType
 
ColourMap() - Constructor for class mgui.interfaces.maps.ColourMap
 
colourMapChanged(ColourMap) - Method in interface mgui.interfaces.maps.ColourMapListener
 
colourMapChanged(ColourMap) - Method in class mgui.interfaces.shapes.Volume3DInt
 
ColourMapChanged - mgui.interfaces.shapes.VertexDataColumnEvent.EventType
 
ColourMapListener - Interface in mgui.interfaces.maps
 
ColourMapLoader - Class in mgui.io.domestic.maps
Base class for loading a colour map from file.
ColourMapLoader() - Constructor for class mgui.io.domestic.maps.ColourMapLoader
 
ColourMapLoader(File) - Constructor for class mgui.io.domestic.maps.ColourMapLoader
 
ColourMapped - mgui.interfaces.plots.mgui.MatrixImagePlot.ColourType
 
ColourMapXMLHandler - Class in mgui.io.domestic.maps
XML (SAX) handler for reading XML-format colour map files.
ColourMapXMLHandler() - Constructor for class mgui.io.domestic.maps.ColourMapXMLHandler
 
colourModelChanged(boolean) - Method in class mgui.interfaces.shapes.volume.GridVertexDataColumn
Called when some process has altered the colour model.
colours - Variable in class mgui.interfaces.maps.DiscreteColourMap
 
colours - Variable in class mgui.interfaces.plots.sgt.SgtMultilinePlotDialog.YTableModel
 
colours - Variable in class mgui.interfaces.plots.sgt.SgtScatterPlotDialog.XYTableModel
 
colours - Variable in class mgui.interfaces.shapes.Mesh2DInt
 
Colours - Class in mgui.util
 
Colours() - Constructor for class mgui.util.Colours
 
colourTableFile - Variable in class mgui.io.standard.xml.svg.SVGInputOptions
 
column - Variable in class mgui.interfaces.shapes.datasources.DataSourceLinkOptions
 
column_format - Variable in class mgui.io.standard.gifti.GiftiOutputOptions
 
ColumnAdded - mgui.interfaces.shapes.VertexDataColumnEvent.EventType
 
ColumnChanged - mgui.interfaces.shapes.VertexDataColumnEvent.EventType
 
ColumnIsCurrent - mgui.interfaces.shapes.VertexDataColumnEvent.EventType
 
ColumnRemoved - mgui.interfaces.shapes.VertexDataColumnEvent.EventType
 
columns - Variable in class mgui.io.domestic.shapes.ShapeDataInputOptions
 
columns - Variable in class mgui.io.domestic.shapes.SurfaceDataOutputOptions
 
columns - Variable in class mgui.io.foreign.caret.CaretMetricInOptions
 
columns - Variable in class mgui.io.foreign.caret.CaretMetricLoader.Header
 
columns - Variable in class mgui.io.foreign.caret.CaretPaintInOptions
 
columns - Variable in class mgui.io.foreign.caret.CaretPaintLoader.Header
 
columns - Variable in class mgui.util.JMultiLineToolTip
 
ColumnsAsVectors - mgui.io.domestic.variables.MatrixInOptions.Variable
 
combine(Mesh3D, Mesh3D) - Static method in class mgui.geometry.mesh.MeshFunctions
Combines mesh1 and mesh2 and returns the result.
combo_box - Variable in class mgui.interfaces.attributes.AttributeSelection
 
combo_mode - Variable in class mgui.interfaces.attributes.AttributeSelectionMap
 
combo_width - Variable in class mgui.interfaces.attributes.AttributeSelectionMap
 
comboPanel - Variable in class mgui.interfaces.InterfaceWorkspace
 
command - Variable in class mgui.pipelines.NativeProcess
 
CommandException - Exception in mgui.command
Exception on a command object
CommandException(String) - Constructor for exception mgui.command.CommandException
 
CommandFunctions - Class in mgui.command
Utility class providing functions to interact with the operating system.
CommandFunctions() - Constructor for class mgui.command.CommandFunctions
 
CommandFunctions.ProcessState - Enum in mgui.command
 
CommandInstance - Class in mgui.command
Class which handles command-line arguments and calls specific methods as implemented by a sub-class.
CommandInstance() - Constructor for class mgui.command.CommandInstance
 
CommandInterpreter - Class in mgui.command
Serves as the base class for command-line interpreters which interact with mgui.
CommandInterpreter() - Constructor for class mgui.command.CommandInterpreter
 
compare(double, double, double) - Static method in class mgui.numbers.NumberFunctions
Compares two numbers within a given precision (number of zeros).
compare(Object, Object) - Method in class mgui.geometry.util.GeometryFunctions.Point3fComp
 
compare(Object, Object) - Method in class mgui.interfaces.attributes.AttributeComparator
 
compare(Object, Object) - Method in class mgui.interfaces.maps.ValueItemComparator
 
compare(Object, Object) - Method in class mgui.morph.sections.AttributeNodeComparator
 
compare(Object, Object) - Method in class mgui.morph.sections.MapWeightComparator
 
compare(Object, Object) - Method in class mgui.morph.sections.NodeMapComparator
 
compare(SortedShape3D.Vertex, SortedShape3D.Vertex) - Method in class mgui.geometry.util.SortedShape3D.VertexComparatorX
 
compare(SortedShape3D.Vertex, SortedShape3D.Vertex) - Method in class mgui.geometry.util.SortedShape3D.VertexComparatorY
 
compare(SortedShape3D.Vertex, SortedShape3D.Vertex) - Method in class mgui.geometry.util.SortedShape3D.VertexComparatorZ
 
compare(Point3f, Point3f) - Method in class mgui.interfaces.shapes.util.ShapeFunctions.Point3fComparatorX
 
compare(Point3f, Point3f) - Method in class mgui.interfaces.shapes.util.ShapeFunctions.Point3fComparatorY
 
compare(Point3f, Point3f) - Method in class mgui.interfaces.shapes.util.ShapeFunctions.Point3fComparatorZ
 
compareDouble(double, double) - Static method in class mgui.geometry.util.GeometryFunctions
Returns -1 if a < b, 0 if a = b, +1 if a > b, within the limits of error.
compareDouble(double, double, double) - Static method in class mgui.geometry.util.GeometryFunctions
Returns -1 if a < b, 0 if a = b, +1 if a > b, within the limits of error.
compareFloat(float, float) - Static method in class mgui.geometry.util.GeometryFunctions
Returns -1 if a < b, 0 if a = b, +1 if a > b, within the limits of error.
compareFloat(float, float, double) - Static method in class mgui.geometry.util.GeometryFunctions
Returns -1 if a < b, 0 if a = b, +1 if a > b, within the limits of error.
compareTo(double) - Method in class mgui.numbers.MguiBoolean
 
compareTo(double) - Method in class mgui.numbers.MguiDouble
 
compareTo(double) - Method in class mgui.numbers.MguiFloat
 
compareTo(double) - Method in class mgui.numbers.MguiInteger
 
compareTo(double) - Method in class mgui.numbers.MguiLong
 
compareTo(double) - Method in interface mgui.numbers.MguiNumber
 
compareTo(double) - Method in class mgui.numbers.MguiShort
 
compareTo(double, int) - Method in class mgui.numbers.MguiBoolean
 
compareTo(double, int) - Method in class mgui.numbers.MguiDouble
 
compareTo(double, int) - Method in class mgui.numbers.MguiFloat
 
compareTo(double, int) - Method in class mgui.numbers.MguiInteger
 
compareTo(double, int) - Method in class mgui.numbers.MguiLong
 
compareTo(double, int) - Method in interface mgui.numbers.MguiNumber
 
compareTo(double, int) - Method in class mgui.numbers.MguiShort
 
compareTo(float) - Method in class mgui.numbers.MguiFloat
 
compareTo(Object) - Method in interface mgui.util.arComparable
 
compareTo(DataField) - Method in class mgui.datasources.DataField
 
compareTo(EnergySphere.EnergyNode) - Method in class mgui.geometry.mesh.EnergySphere.EnergyNode
 
compareTo(Mesh3D.MeshFace3D) - Method in class mgui.geometry.Mesh3D.MeshFace3D
 
compareTo(GeometryFunctions.AnglePoint2D) - Method in class mgui.geometry.util.GeometryFunctions.AnglePoint2D
 
compareTo(Attribute<V>) - Method in class mgui.interfaces.attributes.Attribute
 
compareTo(InterfaceGraphic) - Method in class mgui.interfaces.graphics.InterfaceGraphic
 
compareTo(PickInfoShape2D) - Method in class mgui.interfaces.graphics.util.PickInfoShape2D
 
compareTo(Video3D) - Method in class mgui.interfaces.graphics.video.Video3D
 
compareTo(VideoTask) - Method in class mgui.interfaces.graphics.video.VideoTask
 
compareTo(View3D) - Method in class mgui.interfaces.graphics.View3D
 
compareTo(AbstractGraphNode) - Method in class mgui.interfaces.graphs.AbstractGraphNode
 
compareTo(ProjectDirectory) - Method in class mgui.interfaces.projects.ProjectDirectory
 
compareTo(ProjectInstance) - Method in class mgui.interfaces.projects.ProjectInstance
 
compareTo(ProjectInstanceGroup) - Method in class mgui.interfaces.projects.ProjectInstanceGroup
 
compareTo(InterfaceShape) - Method in class mgui.interfaces.shapes.InterfaceShape
 
compareTo(QueryShapeVertex) - Method in class mgui.interfaces.shapes.queries.QueryShapeVertex
 
compareTo(VertexDataColumn) - Method in class mgui.interfaces.shapes.VertexDataColumn
 
compareTo(DynamicModelComponent) - Method in class mgui.neuro.components.AbstractNeuroComponent
 
compareTo(MguiNumber) - Method in class mgui.numbers.MguiBoolean
 
compareTo(MguiNumber) - Method in class mgui.numbers.MguiDouble
 
compareTo(MguiNumber) - Method in class mgui.numbers.MguiFloat
 
compareTo(MguiNumber) - Method in class mgui.numbers.MguiInteger
 
compareTo(MguiNumber) - Method in class mgui.numbers.MguiLong
 
compareTo(MguiNumber) - Method in class mgui.numbers.MguiShort
 
compareTo(PipelineTask) - Method in class mgui.pipelines.PipelineTask
 
compareTo(NamedIcon) - Method in class mgui.resources.icons.NamedIcon
 
compareTo(Histogram.Bin) - Method in class mgui.stats.Histogram.Bin
 
compareTo(Unit) - Method in class mgui.util.Unit
 
compareToPlane(Point3d, Plane3D) - Static method in class mgui.geometry.util.GeometryFunctions
Determines the position of pt with respect to plane.
compareToPlane(Point3f, Plane3D) - Static method in class mgui.geometry.util.GeometryFunctions
Determines the position of pt with respect to plane.
comparison - Variable in class mgui.interfaces.shapes.InterfaceShapesPanel.VertexSelectionTableModel
 
compartment - Variable in class mgui.neuro.components.compartments.CompartmentEvent
 
CompartmentalComponent - Class in mgui.neuro.components.compartments
Base abstract class for all components using a compartmental model.
CompartmentalComponent() - Constructor for class mgui.neuro.components.compartments.CompartmentalComponent
 
CompartmentalDendrite - Class in mgui.neuro.components.compartments
Represents a dendrite whose activity is determined by the cable model (see Rawl etc.) and a compartmental discrete (numerical) approximation of its differential functions.
CompartmentalDendrite() - Constructor for class mgui.neuro.components.compartments.CompartmentalDendrite
 
CompartmentalDendrite(int, double, double, double, double, double) - Constructor for class mgui.neuro.components.compartments.CompartmentalDendrite
 
CompartmentalNeuron - Class in mgui.neuro.components.compartments
 
CompartmentalNeuron() - Constructor for class mgui.neuro.components.compartments.CompartmentalNeuron
 
CompartmentalSoma - Class in mgui.neuro.components.compartments
 
CompartmentalSoma() - Constructor for class mgui.neuro.components.compartments.CompartmentalSoma
 
CompartmentEvent - Class in mgui.neuro.components.compartments
Basic event for compartments of a compartmental model.
CompartmentEvent(AbstractCompartment) - Constructor for class mgui.neuro.components.compartments.CompartmentEvent
 
compartments - Variable in class mgui.neuro.components.compartments.CompartmentalComponent
 
componentAdded(DynamicModelComponent) - Method in class mgui.models.dynamic.DynamicModelEngine
 
componentAdded(DynamicModelComponent) - Method in interface mgui.models.dynamic.DynamicModelListener
 
componentHidden(ComponentEvent) - Method in class mgui.interfaces.gui.ColourBarOutDialog
 
componentHidden(ComponentEvent) - Method in class mgui.interfaces.InterfacePanel
 
componentMoved(ComponentEvent) - Method in class mgui.interfaces.gui.ColourBarOutDialog
 
componentMoved(ComponentEvent) - Method in class mgui.interfaces.InterfacePanel
 
componentRemoved(DynamicModelComponent) - Method in class mgui.models.dynamic.DynamicModelEngine
 
componentRemoved(DynamicModelComponent) - Method in interface mgui.models.dynamic.DynamicModelListener
 
componentResized(ComponentEvent) - Method in class mgui.interfaces.graphics.InterfaceGraphic3D
Resize axes on window resize, after given delay (to avoid excessive updates)
componentResized(ComponentEvent) - Method in class mgui.interfaces.gui.ColourBarOutDialog
 
componentResized(ComponentEvent) - Method in class mgui.interfaces.InterfacePanel
 
components - Variable in class mgui.interfaces.layouts.LineLayout
 
components - Variable in class mgui.neuro.components.AbstractDendrites
 
componentShown(ComponentEvent) - Method in class mgui.interfaces.gui.ColourBarOutDialog
 
componentShown(ComponentEvent) - Method in class mgui.interfaces.InterfacePanel
 
componentUpdated(NetworkComponentEvent) - Method in class mgui.graphs.networks.AbstractNetworkGraphConnection
 
componentUpdated(NetworkComponentEvent) - Method in class mgui.graphs.networks.AbstractNetworkGraphNode
 
componentUpdated(NetworkComponentEvent) - Method in class mgui.interfaces.neuro.InterfaceNeuroTreeNode
 
componentUpdated(NetworkComponentEvent) - Method in interface mgui.models.networks.components.InterfaceNetworkComponentListener
 
componentUpdated(NetworkComponentEvent) - Method in class mgui.neuro.networks.AbstractNeuralNet
 
componentUpdated(NetworkComponentEvent) - Method in class mgui.neuro.networks.CorticalNetwork
 
composite_alphas - Variable in class mgui.interfaces.shapes.Volume3DInt
 
composite_column_order - Variable in class mgui.interfaces.shapes.Volume3DInt
 
compress - Variable in class mgui.io.domestic.shapes.VolumeOutputOptions
 
compress - Variable in class mgui.io.standard.nifti.NiftiMetadata
 
compressGZipped(byte[]) - Static method in class mgui.io.util.IoFunctions
Compresses a gzipped byte array.
compressZipped(byte[]) - Static method in class mgui.io.util.IoFunctions
Compresses a byte array.
computeConvexHull(Shape3DInt, String, ProgressUpdater) - Method in class mgui.interfaces.shapes.util.ShapeEngine
Computes a convex hull for shape.
computeCorticalPatchCorrelations(Mesh3D, ArrayList<MguiNumber>, HashMap<String, Object>) - Static method in class mgui.geometry.neuro.connectivity.NeuroConnectivityFunctions
Computes correlations between "patches" of cortex, defined by a set of vertices and a patch function.
computeMeanCurvature(Mesh3DInt, ProgressUpdater) - Method in class mgui.geometry.mesh.MeshEngine
Computes the vertex-wise mean curvature of this mesh and stores it in the "target_column" specified it the "Mean Curvature" attributes.
computeVertexWiseCurvature(Mesh3DInt, String, ProgressUpdater) - Static method in class mgui.geometry.mesh.MeshFunctions
Computes the curvature of a mesh at each of its nodes, as the magnitude of the sum of surface normals of the triangles of which it is a node.
concatenate(AffineTransform) - Method in class mgui.interfaces.shapes.graphs.Graph2DInt.DrawingTransformer
 
Concise - mgui.interfaces.logs.LoggingType
 
condenseMesh(Mesh3D) - Static method in class mgui.geometry.mesh.MeshFunctions
Condenses a mesh by removing all coincident nodes.
conjugate() - Method in class au.edu.unsw.cse.Quaternion
 
conn - Variable in class mgui.datasources.DataSource
 
connect() - Method in class mgui.datasources.DataSource
Attempts to connect to a data source with the given parameters.
connect(int, int, double) - Method in class mgui.neuro.networks.CorticalNetwork
 
connect(String, String, double) - Method in class mgui.neuro.networks.CorticalNetwork
 
connect(AbstractCorticalRegion, AbstractCorticalRegion, double) - Method in class mgui.neuro.networks.CorticalNetwork
 
ConnectableNeuron - Class in mgui.neuro.components.types
 
ConnectableNeuron() - Constructor for class mgui.neuro.components.types.ConnectableNeuron
 
connectDendrite(ConnectableNeuron, AbstractSynapse, int) - Method in class mgui.neuro.components.types.ConnectableNeuron
 
connectDendrites() - Method in class mgui.neuro.components.AbstractNeuron
Resets the dendrite connectivity for this neuron by connecting all dendrites which are not connected to other dendrites to this neuron's soma.
connectDendrites() - Method in class mgui.neuro.components.compartments.CompartmentalNeuron
 
connectDendrites() - Method in interface mgui.neuro.components.Neuron
 
connection - Variable in class mgui.datasources.DataSource
 
connections - Variable in class mgui.neuro.components.AbstractNeuroComponent
 
connectOpenDendrite(ConnectableNeuron, AbstractSynapse) - Method in class mgui.neuro.components.types.ConnectableNeuron
Connect the passed SimpleNeuron to this neuron's first open (synapse-free) dendrite.
connectRegions(String, String) - Method in class mgui.neuro.networks.CorticalNetwork
 
connectSynapse(AbstractSynapse) - Method in class mgui.neuro.components.simple.SimpleAxon
 
connectSynapse(Synapse) - Method in class mgui.neuro.components.AbstractAxon
 
connectSynapse(Synapse) - Method in interface mgui.neuro.components.Axon
 
connectTo(AbstractCorticalRegion) - Method in class mgui.neuro.components.cortical.AbstractCorticalConnection
 
connectTo(AbstractCorticalRegion) - Method in class mgui.neuro.components.cortical.CorticalVolume
 
connectTo(AbstractCorticalRegion) - Method in class mgui.neuro.components.cortical.simple.SimpleCorticalConnection
 
connectTo(AbstractCorticalRegion) - Method in class mgui.neuro.components.cortical.simple.SimpleCorticalInput
 
connectTo(AbstractCorticalRegion, double) - Method in class mgui.neuro.components.cortical.AbstractCorticalRegion
 
connectTo(AbstractCorticalRegion, double) - Method in class mgui.neuro.components.cortical.CorticalVolume
 
connectTo(AbstractCorticalRegion, double) - Method in class mgui.neuro.components.cortical.simple.SimpleCorticalConnection
 
connectTo(AbstractCorticalRegion, double) - Method in class mgui.neuro.components.cortical.simple.SimpleCorticalRegion
 
connectTo(Dendrite) - Method in class mgui.neuro.components.AbstractDendrite
Connects this dendrite to another dendrite.
connectTo(Dendrite) - Method in class mgui.neuro.components.compartments.CompartmentalDendrite
 
connectTo(Dendrite) - Method in interface mgui.neuro.components.Dendrite
 
connectTo(Dendrite) - Method in class mgui.neuro.components.simple.SimpleDendrite
 
connectTo(Soma) - Method in class mgui.neuro.components.AbstractDendrite
Connects this dendrite to a soma.
connectTo(Soma) - Method in class mgui.neuro.components.compartments.CompartmentalDendrite
 
connectTo(Soma) - Method in interface mgui.neuro.components.Dendrite
 
connectTo(Soma) - Method in class mgui.neuro.components.simple.SimpleDendrite
 
connectTo(ConnectableNeuron, AbstractSynapse) - Method in class mgui.neuro.components.types.ConnectableNeuron
 
consolidateDirectories(HashMap<String, Object>) - Static method in class mgui.interfaces.projects.util.ProjectFunctions
Consolidates the contents of a set of directories into a single directory.
consolidateDirectories(HashMap<String, Object>, ProgressUpdater) - Static method in class mgui.interfaces.projects.util.ProjectFunctions
Consolidates the contents of a set of directories into a single directory.
ConsolidateDirectoriesDialogBox - Class in mgui.interfaces.projects.util
Defines parameters for a consolidation of directories into one directory.
ConsolidateDirectoriesDialogBox(JFrame, InterfaceOptions) - Constructor for class mgui.interfaces.projects.util.ConsolidateDirectoriesDialogBox
 
ConstrainedRadialRepresentation - Class in mgui.morph.sections
 
ConstrainedRadialRepresentation() - Constructor for class mgui.morph.sections.ConstrainedRadialRepresentation
 
ConstrainedRadialRepresentation(Polygon2D) - Constructor for class mgui.morph.sections.ConstrainedRadialRepresentation
 
constraints - Variable in class mgui.interfaces.layouts.CategoryLayout
 
constraints - Variable in class mgui.interfaces.layouts.LineLayout
 
constraints - Variable in class mgui.interfaces.shapes.InterfaceShape
 
constraints - Variable in class mgui.interfaces.shapes.PointSet2DInt
 
consume() - Method in class mgui.interfaces.shapes.util.ShapeEvent
 
contained - Variable in class mgui.interfaces.shapes.mesh.MeshPlaneMaskOptions
 
contains(int) - Method in class mgui.interfaces.maps.NameMap
 
contains(String) - Method in class mgui.interfaces.maps.NameMap
 
contains(Point2f) - Method in class mgui.geometry.Polygon2D
 
contains(Point2f) - Method in class mgui.geometry.Rect2D
 
contains(Point2f) - Method in class mgui.geometry.Shape2D
 
contains(Point2f) - Method in class mgui.geometry.Triangle2D
From http://www.blackpawn.com/texts/pointinpoly/default.html: function SameSide(p1,p2, a,b) cp1 = CrossProduct(b-a, p1-a) cp2 = CrossProduct(b-a, p2-a) if DotProduct(cp1, cp2) >= 0 then return true else return false function PointInTriangle(p, a,b,c) if SameSide(p,a, b,c) and SameSide(p,b, a,c) and SameSide(p,c, a,b) then return true else return false
contains(Point2f) - Method in class mgui.interfaces.shapes.Shape2DInt
 
contains(Point3d) - Method in class mgui.interfaces.shapes.Shape3DInt
 
contains(Point3f) - Method in class mgui.geometry.Box3D
 
contains(Point3f) - Method in class mgui.geometry.Shape3D
Determines whether this shape contains point.
contains(Point3f) - Method in class mgui.geometry.Triangle3D
Determines whether p is contained by this triangle.
containsByReferenceShapes() - Method in class mgui.io.domestic.shapes.ShapeModel3DOutputOptions
Returns true if this options contains any shapes to be written by reference
containsObject(Object) - Method in class mgui.interfaces.trees.InterfaceTreeNode
 
containsTab(String) - Method in class mgui.interfaces.InterfaceTabbedDisplayPanel
 
Context - Class in mgui.io.foreign.vol
 
Context(URL) - Constructor for class mgui.io.foreign.vol.Context
 
ContinuousColourBar - Class in mgui.interfaces.maps
Component displays a continuous colour map as a horizontal bar portraying the colour gradient between anchors.
ContinuousColourBar() - Constructor for class mgui.interfaces.maps.ContinuousColourBar
 
ContinuousColourBar(ContinuousColourMap) - Constructor for class mgui.interfaces.maps.ContinuousColourBar
 
ContinuousColourMap - Class in mgui.interfaces.maps
Maps colours to values based upon a set of anchors (expressed on the range [0:1]) and an interpolator.
ContinuousColourMap() - Constructor for class mgui.interfaces.maps.ContinuousColourMap
 
ContinuousColourMap(String) - Constructor for class mgui.interfaces.maps.ContinuousColourMap
 
ContinuousColourMap.Anchor - Class in mgui.interfaces.maps
 
ContinuousColourMapLoader - Class in mgui.io.domestic.maps
Loads a comma-delimited continuous colour map.
ContinuousColourMapLoader() - Constructor for class mgui.io.domestic.maps.ContinuousColourMapLoader
 
ContinuousColourMapLoader(File) - Constructor for class mgui.io.domestic.maps.ContinuousColourMapLoader
 
ContinuousColourMapWriter - Class in mgui.io.domestic.maps
Writes a comma-delimited continuous colour map.
ContinuousColourMapWriter() - Constructor for class mgui.io.domestic.maps.ContinuousColourMapWriter
 
ContinuousColourMapWriter(File) - Constructor for class mgui.io.domestic.maps.ContinuousColourMapWriter
 
controlNodes - Variable in class mgui.morph.sections.ConstrainedRadialRepresentation
 
controlRadialNodes - Variable in class mgui.morph.sections.ConstrainedRadialRepresentation
 
controlsValid() - Method in class mgui.interfaces.datasources.DataSourceDriverDialogBox
 
conversion_factor - Variable in class mgui.util.ScaledUnit
 
convert(Unit, double) - Method in class mgui.geometry.util.SpatialUnit
Converts value, specified with unit, to its equivalent in this Unit.
convert(Unit, double) - Method in class mgui.util.ScaledUnit
Converts value, specified with unit, to its equivalent in this Unit.
convert(Unit, double) - Method in class mgui.util.Unit
Converts value, specified with unit, to its equivalent in this Unit.
convertRawGreytoPNG(String, String, int, int, int) - Static method in class mgui.io.imaging.ImagingIOFunctions
 
convertRawRGBtoPNG(String, String, int, int, int) - Static method in class mgui.io.imaging.ImagingIOFunctions
 
ConvertRawToPNG - Class in mgui.neuro.imaging.tasks
Read in an rgb raw image and write out a png image
ConvertRawToPNG() - Constructor for class mgui.neuro.imaging.tasks.ConvertRawToPNG
 
ConvexHullFunctions - Class in mgui.geometry.util
 
ConvexHullFunctions() - Constructor for class mgui.geometry.util.ConvexHullFunctions
 
coord_comment - Variable in class mgui.io.foreign.caret.CaretSurfaceInfo
coord header: BeginHeader caret-version 5.402 comment Coord Frame (stereotaxic space), orientation specified (3 Aug 2006 - DVE) This file is the average of: Human_Buck_Case01.R.F.RegToPALS_B12.LR.FIDUCIAL_SPM2.73730.coord Human_Buck_Case02.R.F.RegToPALS_B12.LR.FIDUCIAL_SPM2.73730.coord Human_Buck_Case03.R.F.RegToPALS_B12.LR.FIDUCIAL_SPM2.73730.coord Human_Buck_Case04.R.F.RegToPALS_B12.LR.FIDUCIAL_SPM2.clean.73730.coord Human_Buck_Case05.R.F.RegToPALS_B12.LR.FIDUCIAL_SPM2.73730.coord Human_Buck_Case06.R.F.RegToPALS_B12.LR.FIDUCIAL_SPM2.clean.73730.coord Human_Buck_Case07.R.M.RegToPALS_B12.LR.FIDUCIAL_SPM2.73730.coord Human_Buck_Case08.R.M.RegToPALS_B12.LR.FIDUCIAL_SPM2.73730.coord Human_Buck_Case09.R.M.RegToPALS_B12.LR.FIDUCIAL_SPM2.73730.coord Human_Buck_Case10.R.M.RegToPALS_B12.LR.FIDUCIAL_SPM2.73730.coord Human_Buck_Case11.R.M.RegToPALS_B12.LR.FIDUCIAL_SPM2.73730.coord Human_Buck_Case12.R.M.RegToPALS_B12.LR.FIDUCIAL_SPM2.clean.73730.coord configuration_id FIDUCIAL coordframe_id SPM2 date Thu Aug 3 21:54:45 2006 encoding BINARY orientation LPI structure right topo_file Human.sphere_6.RIGHT_HEM.73730.topo EndHeader
coord_configuration_id - Variable in class mgui.io.foreign.caret.CaretSurfaceInfo
 
coord_coordframe_id - Variable in class mgui.io.foreign.caret.CaretSurfaceInfo
 
coord_orientation - Variable in class mgui.io.foreign.caret.CaretSurfaceInfo
 
coord_structure - Variable in class mgui.io.foreign.caret.CaretSurfaceInfo
 
CoordAttr - Class in mgui.io.foreign.vol
 
coordFile - Variable in class mgui.io.foreign.caret.CaretSurfaceLoader
 
coordFile - Variable in class mgui.io.foreign.caret.CaretSurfaceOutOptions
 
coordFile - Variable in class mgui.io.foreign.caret.CaretSurfaceWriter
 
Coordinate3DLayout<V extends AbstractGraphNode,​E extends AbstractGraphEdge> - Class in mgui.interfaces.graphs.layouts
Layout for graph nodes in 3D, specifying fixed positions in R3.
Coordinate3DLayout(Graph<V, E>) - Constructor for class mgui.interfaces.graphs.layouts.Coordinate3DLayout
 
CoordinateLayout<V extends AbstractGraphNode,​E extends AbstractGraphEdge> - Class in mgui.interfaces.graphs.layouts
Layout for AbstractGraphNodes, which projects the 3D locations of these nodes onto a given plane.
CoordinateLayout(Graph<V, E>) - Constructor for class mgui.interfaces.graphs.layouts.CoordinateLayout
Creates an instance for the specified graph, with a default horizontal projection plane.
CoordinateLayout(Graph<V, E>, Plane3D) - Constructor for class mgui.interfaces.graphs.layouts.CoordinateLayout
 
coordTypes - Static variable in class mgui.interfaces.graphics.util.DrawingEngine
 
coordURL - Variable in class mgui.io.foreign.caret.CaretSurfaceLoader
 
coordURL - Variable in class mgui.io.foreign.caret.CaretSurfaceWriter
 
copy() - Method in class mgui.interfaces.gui.InterfaceComboBox
Copies this combo box to a new combo box, containing the same items.
copyAttributes(InterfaceShape) - Method in class mgui.interfaces.shapes.InterfaceShape
Copies attributes to this shape.
copyAttributes(InterfaceShape) - Method in class mgui.interfaces.shapes.Shape3DInt
 
copyAttributes(VertexDataColumn) - Method in class mgui.interfaces.shapes.VertexDataColumn
Copies the attributes of source_column to this column.
copyDir(File, File) - Static method in class mgui.io.util.IoFunctions
Copies the directory dir and all its contents to the directory dest.
copyDir(File, File, boolean) - Static method in class mgui.io.util.IoFunctions
Copies the directory dir and all its contents to the directory dest.
copyDir(File, File, boolean, ProgressUpdater) - Static method in class mgui.io.util.IoFunctions
Copies the directory dir and all its contents to the directory dest.
copyDirContents(File, File) - Static method in class mgui.io.util.IoFunctions
Copies the contents of directory dir (but not the directory itself) to the directory dest.
copyDirContents(File, File, boolean) - Static method in class mgui.io.util.IoFunctions
Copies the contents of directory dir (but not the directory itself) to the directory dest.
copyDirContents(File, File, boolean, ProgressUpdater) - Static method in class mgui.io.util.IoFunctions
Copies the contents of directory dir (but not the directory itself) to the directory dest.
copyFile(File, File) - Static method in class mgui.io.util.IoFunctions
Copies sourceFile to the path specified by destFile.
copyHeader(Nifti1Dataset) - Method in class mgui.io.standard.nifti.Nifti1Dataset
 
corner1 - Variable in class mgui.geometry.Rect2D
 
corner2 - Variable in class mgui.geometry.Rect2D
 
correction_stdev - Variable in class mgui.geometry.neuro.mesh.ScalpAndSkullModelOptions
 
correctOrientation(Mesh3D) - Static method in class mgui.geometry.mesh.MeshFunctions
Orients all faces with each other, starting with the first face
correctOrientation(Mesh3D, boolean) - Static method in class mgui.geometry.mesh.MeshFunctions
Orients all faces with each other (starting with face 0)
CorticalFunction - Class in mgui.neuro.components.cortical.functions
 
CorticalFunction() - Constructor for class mgui.neuro.components.cortical.functions.CorticalFunction
 
CorticalHemisphereSet3DInt - Class in mgui.interfaces.shapes.neuro
 
CorticalHemisphereSet3DInt() - Constructor for class mgui.interfaces.shapes.neuro.CorticalHemisphereSet3DInt
 
CorticalHemisphereSet3DInt(String) - Constructor for class mgui.interfaces.shapes.neuro.CorticalHemisphereSet3DInt
 
CorticalNetwork - Class in mgui.neuro.networks
 
CorticalNetwork() - Constructor for class mgui.neuro.networks.CorticalNetwork
 
CorticalNetwork(String) - Constructor for class mgui.neuro.networks.CorticalNetwork
 
CorticalNetworkGraph - Class in mgui.neuro.graphs
 
CorticalNetworkGraph() - Constructor for class mgui.neuro.graphs.CorticalNetworkGraph
 
CorticalNetworkGraph(CorticalNetwork) - Constructor for class mgui.neuro.graphs.CorticalNetworkGraph
 
CorticalNetworkGraphConnection - Class in mgui.neuro.graphs
 
CorticalNetworkGraphConnection(AbstractCorticalConnection, CorticalNetworkGraphNode, CorticalNetworkGraphNode) - Constructor for class mgui.neuro.graphs.CorticalNetworkGraphConnection
 
CorticalNetworkGraphNode - Class in mgui.neuro.graphs
 
CorticalNetworkGraphNode(AbstractCorticalRegion) - Constructor for class mgui.neuro.graphs.CorticalNetworkGraphNode
 
CorticalNetworkMatrixInDialogBox - Class in mgui.io.domestic.network
 
CorticalNetworkMatrixInDialogBox() - Constructor for class mgui.io.domestic.network.CorticalNetworkMatrixInDialogBox
 
CorticalNetworkMatrixInDialogBox(JFrame, InterfaceIOPanel, InterfaceIOOptions) - Constructor for class mgui.io.domestic.network.CorticalNetworkMatrixInDialogBox
 
CorticalNetworkMatrixInOptions - Class in mgui.io.domestic.network
Inputs a matrix as a weighted cortical network.
CorticalNetworkMatrixInOptions() - Constructor for class mgui.io.domestic.network.CorticalNetworkMatrixInOptions
 
CorticalNetworkMatrixInOptions(CorticalNetworkMatrixInOptions.Format) - Constructor for class mgui.io.domestic.network.CorticalNetworkMatrixInOptions
 
CorticalNetworkMatrixInOptions.Format - Enum in mgui.io.domestic.network
 
CorticalNetworkMatrixLoader - Class in mgui.io.domestic.network
Reads an ASCII matrix representing a connected network into a cortical network, assigning weights based upon a specified range (mapped to the continuous range [0.0:1.0]).
CorticalNetworkMatrixLoader() - Constructor for class mgui.io.domestic.network.CorticalNetworkMatrixLoader
 
CorticalNetworkMatrixLoader(File) - Constructor for class mgui.io.domestic.network.CorticalNetworkMatrixLoader
 
CorticalNetworkMatrixLoader(File, CorticalNetworkMatrixInOptions) - Constructor for class mgui.io.domestic.network.CorticalNetworkMatrixLoader
 
CorticalNetworkXMLHandler - Class in mgui.io.domestic.network
Handler for XML encoding of cortical networks.
CorticalNetworkXMLHandler() - Constructor for class mgui.io.domestic.network.CorticalNetworkXMLHandler
 
CorticalNetworkXMLHandler(CorticalNetworkMatrixInOptions) - Constructor for class mgui.io.domestic.network.CorticalNetworkXMLHandler
 
CorticalRegion - Class in mgui.neuro.components
Represents a component at the resolution of a cortical region.
CorticalRegion() - Constructor for class mgui.neuro.components.CorticalRegion
 
CorticalSurfaceSet3DInt - Class in mgui.interfaces.shapes.neuro
Representation of a set of cortical surfaces, including grey matter (GM) interfaces with white matter (WM) and cerebrospinal fluid (CSF).
CorticalSurfaceSet3DInt() - Constructor for class mgui.interfaces.shapes.neuro.CorticalSurfaceSet3DInt
 
CorticalSurfaceSet3DInt(String) - Constructor for class mgui.interfaces.shapes.neuro.CorticalSurfaceSet3DInt
 
CorticalSurfaceSet3DInt(String, CorticalHemisphereSet3DInt, CorticalHemisphereSet3DInt) - Constructor for class mgui.interfaces.shapes.neuro.CorticalSurfaceSet3DInt
 
CorticalThicknessDataTableDialogBox - Class in mgui.interfaces.neuro
 
CorticalThicknessDataTableDialogBox() - Constructor for class mgui.interfaces.neuro.CorticalThicknessDataTableDialogBox
 
CorticalThicknessDataTableDialogBox(JFrame, CorticalThicknessDataTableOptions) - Constructor for class mgui.interfaces.neuro.CorticalThicknessDataTableDialogBox
 
CorticalThicknessDataTableOptions - Class in mgui.interfaces.neuro
 
CorticalThicknessDataTableOptions(InterfacePanel) - Constructor for class mgui.interfaces.neuro.CorticalThicknessDataTableOptions
 
CorticalThicknessDialogBox - Class in mgui.interfaces.neuro
Defines a cortical thickness project
CorticalThicknessDialogBox() - Constructor for class mgui.interfaces.neuro.CorticalThicknessDialogBox
 
CorticalThicknessDialogBox(JFrame, CorticalThicknessOptions) - Constructor for class mgui.interfaces.neuro.CorticalThicknessDialogBox
 
CorticalThicknessOptions - Class in mgui.interfaces.neuro
 
CorticalThicknessOptions(InterfacePanel) - Constructor for class mgui.interfaces.neuro.CorticalThicknessOptions
 
CorticalVolume - Class in mgui.neuro.components.cortical
A Volume3D-based representation of a cortical region.
CorticalVolume - Class in mgui.neuro.components
A Volume3D-based representation of a cortical region.
CorticalVolume(Volume3DInt) - Constructor for class mgui.neuro.components.cortical.CorticalVolume
 
CorticalVolume(Volume3DInt) - Constructor for class mgui.neuro.components.CorticalVolume
 
CounterClockwise - mgui.geometry.polygon.PolygonFunctions.PolyDirection
 
countOccurrences(String, String) - Static method in class mgui.util.StringFunctions
Counts the number of times occ occurs in s.
countTokens() - Method in class mgui.util.PowerfulTokenizer
Total number of tokens present in the input string
countTokens() - Method in class mgui.util.QuotedStringTokenizer
Not implemented.
cp() - Constructor for class mgui.interfaces.unix.UnixFunctions.cp
 
creatable_scene_node - Variable in class mgui.interfaces.shapes.Shape3DInt
 
create() - Method in class mgui.datasources.DataSource
Create a new data source with the given connection parameters.
create() - Method in class mgui.interfaces.graphs.util.GraphFunctions.EdgeFactory
 
create() - Method in class mgui.interfaces.graphs.util.GraphFunctions.NodeFactory
 
create_shape - Variable in class mgui.io.foreign.pajek.PajekGraphInputOptions
 
create_string - Variable in class mgui.io.foreign.freesurfer.FreesurferSurfaceOutputOptions
 
createAttribute(Class<V>, String, Object) - Static method in class mgui.interfaces.xml.XMLFunctions
Creates a new Attribute with a new instance of the given class.
createCompatibleSampleModel(int, int) - Method in class mgui.image.util.WindowedColourModel
 
createCompatibleSampleModel(int, int) - Method in class mgui.interfaces.shapes.util.GridSampleModel
Creates a new BandedSampleModel with the specified width and height.
createCompatibleWritableRaster(int, int) - Method in class mgui.image.util.WindowedColourModel
 
createDataBuffer() - Method in class mgui.interfaces.shapes.util.GridSampleModel
Creates a DataBuffer that corresponds to this BandedSampleModel, The DataBuffer's data type, number of banks, and size will be consistent with this BandedSampleModel.
createDirs(File) - Static method in class mgui.io.util.IoFunctions
Parses file and creates any non-existent directories in its path
createGraph - Variable in class mgui.io.domestic.network.CorticalNetworkMatrixInOptions
 
createModelChoice() - Method in class au.edu.unsw.cse.Applet3d
override this method if we want a choice of models
createModelChoice() - Method in class au.edu.unsw.cse.AppletDepth
 
createModelChoice() - Method in class au.edu.unsw.cse.AppletHull
 
createModelChoice() - Method in class au.edu.unsw.cse.AppletPatch
 
createNewDataSource(String, String, String, String, String) - Static method in class mgui.datasources.util.DataSourceFunctions
Attempts to creates a new data source, with the given parameters.
createNodeShape(String) - Static method in class mgui.interfaces.graphs.util.GraphFunctions
Creates a Shape instance, used to render graph nodes, by parsing a line of text, with the format:
createSceneGraph() - Method in class mgui.interfaces.shapes.util.Texture3DTest
 
createSceneGraph2() - Method in class mgui.interfaces.shapes.util.Texture3DTest
 
createSceneGraph3() - Method in class mgui.interfaces.shapes.util.Texture3DTest
 
createSubsetSampleModel(int[]) - Method in class mgui.interfaces.shapes.util.GridSampleModel
Creates a new BandedSampleModel with a subset of the bands of this BandedSampleModel.
createTempTable(String) - Method in class mgui.datasources.DataSource
Creates and returns a temporary table, and adds it to this data source's list of temp tables.
createToolTip() - Method in class mgui.interfaces.stats.HistogramPlot
 
createTransferable(JComponent) - Method in class mgui.interfaces.pipelines.trees.PipelineTreeTransferHandler
 
cross(Point3d) - Method in class au.edu.unsw.cse.Point3d
 
crosses(Box3D, Box3D) - Static method in class mgui.geometry.util.GeometryFunctions
Determines whether the spaces defined by these boxes intersect.
crosses(LineSegment2D, LineSegment2D) - Static method in class mgui.geometry.util.GeometryFunctions
Determines whether the line segments l1 and l2 cross.
crosses(LineSegment2D, Rect2D) - Static method in class mgui.geometry.util.GeometryFunctions
 
crosses(Rect2D, Rect2D) - Static method in class mgui.geometry.util.GeometryFunctions
 
crosses(Vector2D, Rect2D) - Static method in class mgui.geometry.util.GeometryFunctions
Determines whether vector crosses rect.
crosses(Vector2D, Rect2D, boolean) - Static method in class mgui.geometry.util.GeometryFunctions
Determines whether vector crosses rect.
crossesPlane(Plane3D) - Method in class mgui.interfaces.shapes.SectionSet3DInt
 
crossesPlane(Plane3D) - Method in class mgui.interfaces.shapes.Shape3DInt
Convenience method which determines whether this shape cross plane.
crossesPlane(Shape3D, Plane3D) - Static method in class mgui.geometry.util.GeometryFunctions
Determines whether plane p crosses box b.
CSELogo - Class in au.edu.unsw.cse
 
CSELogo() - Constructor for class au.edu.unsw.cse.CSELogo
 
ctl - Variable in class au.edu.unsw.cse.Bezier3d
 
ctl - Variable in class au.edu.unsw.cse.Bspline3d
 
ctrl_pressed - Variable in class mgui.interfaces.tools.ToolInputEvent
 
Cube - Class in au.edu.unsw.cse
 
Cube(Point3d) - Constructor for class au.edu.unsw.cse.Cube
Create a cube with centre at specified point and with same radius as last one
Cube(Point3d, double) - Constructor for class au.edu.unsw.cse.Cube
Create a cube with centre at specified point and with given radius
Cube3D - Class in mgui.geometry
Represents a 3 dimensional cube object, using a Point3f, two Vector3f's and a float.
Cube3D() - Constructor for class mgui.geometry.Cube3D
 
Cube3D(Point3f, Point3f, Point3f, float) - Constructor for class mgui.geometry.Cube3D
 
Cube3D(Point3f, Vector3f[], float) - Constructor for class mgui.geometry.Cube3D
 
current - Variable in class mgui.interfaces.Clipboard
 
current - Variable in class mgui.pipelines.PipelineTask
 
current - Variable in class mgui.util.OptionList
 
current_attribute - Variable in class mgui.io.domestic.attributes.AttributeXMLHandler
 
current_attribute_dialog - Variable in class mgui.interfaces.InterfaceWorkspace
 
current_attribute_string - Variable in class mgui.io.domestic.attributes.AttributeXMLHandler
 
current_class - Variable in class mgui.io.domestic.attributes.AttributeXMLHandler
 
current_composites - Variable in class mgui.interfaces.shapes.volume.InterfaceVolumeSetPanel
 
current_dir - Static variable in class mgui.interfaces.InterfaceEnvironment
 
current_file - Variable in class mgui.interfaces.gui.FileButton
 
current_location - Variable in class mgui.interfaces.neuro.imaging.camino.CaminoPipelineTree
 
current_location - Variable in class mgui.interfaces.pipelines.trees.PipelineTree
 
current_mesh - Variable in class mgui.io.standard.gifti.GiftiInputOptions
 
current_plane - Variable in class mgui.interfaces.shapes.util.Plane3DDialog
 
current_plot - Variable in class mgui.interfaces.plots.InterfacePlotDisplay
 
current_popup - Variable in class mgui.interfaces.neuro.imaging.camino.CaminoPipelineTree
 
current_popup - Variable in class mgui.interfaces.pipelines.trees.PipelineTree
 
current_process - Variable in class mgui.io.domestic.pipelines.PipelineProcessLibraryXMLHandler
 
current_processes - Static variable in class mgui.command.CommandInstance
 
current_project - Variable in class mgui.interfaces.projects.InterfaceProjectPanel
 
current_query - Variable in class mgui.interfaces.tools.shapes.ToolQueryShape2D
 
current_query - Variable in class mgui.interfaces.tools.shapes.ToolQueryShape3D
 
current_query - Variable in class mgui.io.domestic.datasources.DataSourceXMLHandler
 
current_shape_attribute_dialog - Variable in class mgui.interfaces.InterfaceWorkspace
 
current_shape_model - Variable in class mgui.interfaces.InterfaceWorkspace
 
current_shape_string - Variable in class mgui.io.domestic.shapes.xml.InterfaceShapeXMLHandler
 
current_sql - Variable in class mgui.io.domestic.datasources.DataSourceXMLHandler
 
current_system_processes - Variable in class mgui.pipelines.JavaProcess
 
current_system_processes - Variable in class mgui.pipelines.NativeProcess
 
current_type - Variable in class mgui.io.domestic.shapes.xml.InterfaceShapeXMLHandler
 
current_value - Variable in class mgui.interfaces.graphs.AbstractGraphNode
 
current_value - Variable in class mgui.interfaces.gui.AbstractProgressUpdater
 
current_volume_set - Variable in class mgui.interfaces.shapes.volume.InterfaceVolumeSetPanel
 
current_worker_thread - Variable in class mgui.pipelines.PipelineState
 
current_xml_type - Variable in class mgui.io.domestic.shapes.xml.InterfaceShapeXMLHandler
 
currentDataSource - Variable in class mgui.interfaces.shapes.InterfaceShapesPanel
 
currentDataSource - Variable in class mgui.interfaces.shapes.mesh.InterfaceMeshPanel
 
currentDataTable - Variable in class mgui.interfaces.shapes.InterfaceShapesPanel
 
currentDataTable - Variable in class mgui.interfaces.shapes.mesh.InterfaceMeshPanel
 
currentLinkField - Variable in class mgui.interfaces.shapes.InterfaceShapesPanel
 
currentLinkField - Variable in class mgui.interfaces.shapes.mesh.InterfaceMeshPanel
 
currentMesh - Variable in class mgui.interfaces.shapes.mesh.InterfaceMeshPanel
 
currentMesh - Variable in class mgui.io.domestic.shapes.MeshOptionsDialogBox
 
currentModel - Variable in class mgui.interfaces.InterfaceDisplayPanel
 
currentModel - Variable in class mgui.interfaces.models.InterfaceDynamicModelPanel
 
currentPanel - Variable in class mgui.interfaces.InterfaceComboPanel
 
CurrentPulse(int, double, double, double) - Constructor for class mgui.models.updaters.PulseTrainUpdater.CurrentPulse
 
CurrentPulse(int, double, double, double) - Constructor for class mgui.neuro.updaters.PulseTrainUpdater.CurrentPulse
 
currentSample - Variable in class mgui.io.foreign.vol.Volume3DInputStream
 
currentScene - Variable in class mgui.interfaces.graphics.InterfaceGraphic3D
 
currentSections - Variable in class mgui.interfaces.graphics.InterfaceGraphic2D
 
currentSelection - Variable in class mgui.interfaces.graphics.InterfaceGraphic2D
 
currentSelection - Variable in class mgui.interfaces.graphics.InterfaceGraphic3D
 
currentSelection - Variable in class mgui.interfaces.InterfaceDisplayPanel
 
currentSet - Variable in class mgui.interfaces.graphics.InterfaceGraphic3D
 
currentSet - Variable in class mgui.morph.sections.InterfaceMorphPanel
 
currentSet - Variable in class mgui.morph.sections.InterfaceMorphPanel2
 
currentSet - Variable in class mgui.morph.sections.InterfaceRadialRep
 
currentSet - Variable in class mgui.morph.sections.InterfaceRadialRep2
 
currentSet - Variable in class mgui.neuro.stats.SimpleStatistics
 
currentTool - Variable in class mgui.interfaces.frames.SessionFrame
 
currentTool - Variable in class mgui.interfaces.graphics.InterfaceGraphic2D
 
currentTool - Variable in class mgui.interfaces.graphics.InterfaceGraphic3D
 
currentTool - Variable in class mgui.interfaces.graphs.InterfaceGraphDisplay
 
currentTool - Variable in class mgui.interfaces.InterfaceDisplayPanel
 
currentVolume - Variable in class mgui.interfaces.shapes.volume.InterfaceVolumePanel
 
cursor - Variable in class mgui.interfaces.plots.MatrixPlotDataSource
 
cursor - Variable in class mgui.interfaces.plots.PlotXYDataSource
 
CurveTo - Class in mgui.io.standard.xml.svg
 
CurveTo(SVGParser.Mode) - Constructor for class mgui.io.standard.xml.svg.CurveTo
 
cut_plane - Variable in class mgui.interfaces.tools.shapes.ToolCutMeshWithPlaneOptions
 
cutMeshWithPlane(Mesh3D, Plane3D, InterfaceProgressBar) - Static method in class mgui.geometry.mesh.MeshFunctions
Cuts mesh with plane, creating new faces along the cut seam.
cutMeshWithPlane3(Mesh3D, Plane3D) - Static method in class mgui.geometry.mesh.MeshFunctions
Cuts mesh with plane, creating new faces along the cut seam.
cylinder_appearance - Variable in class mgui.interfaces.shapes.Polygon3DInt
 
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