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C

CalcForce(double, T) - Method in interface HAL.Interfaces.OverlapForceResponse2D

CalcForce(double, T) - Method in interface HAL.Interfaces.OverlapForceResponse3D

CapVelocity(double) - Method in class HAL.GridsAndAgents.SphericalAgent2D

caps the xVel and yVel variables such that their norm is not greater than maxVel

CapVelocity(double) - Method in class HAL.GridsAndAgents.SphericalAgent3D

caps the xVel and yVel variables such that their norm is not greater than maxVel

CategorialColor(int) - Static method in class HAL.Util

returns a color from the d3 category20 color set based on the index argument

CategoricalColors(int, int) - Static method in class HAL.Util

CbCrPlaneColor(double, double) - Static method in class HAL.Util

generates an RGB color from the CbCr plane with x,y coordinates assumed to be from 0 to 1

CelSphere(double, double, double, double, int) - Method in class HAL.Gui.OpenGL3DWindow

draws a circle with a white dot and background black border to mark the outline of a cell

CheckValidModel() - Method in class HAL.Tools.InteractiveModel.InteractiveModel

Circle(double, double, double, double, int) - Method in class HAL.Gui.OpenGL3DWindow

draws a circle centered around x,y, subsequent circles will be drawn over top

Circle(double, double, double, double, ColorIntGenerator) - Method in class HAL.Gui.OpenGL3DWindow

draws a circle centered around x,y, subsequent circles will be drawn over top, the ColorGen function is used to generate the color of the circle and will not be called if the Gui is not active

Circle(double, double, double, int) - Method in class HAL.Gui.OpenGL2DWindow

draws a circle centered around x,y, subsequent circles will be drawn over top

Circle(double, double, double, ColorIntGenerator) - Method in class HAL.Gui.OpenGL2DWindow

draws a circle centered around x,y, subsequent circles will be drawn over top, the ColorGen function is used to generate the color of the circle and will not be called if the Gui is not active

CircleHood(boolean, double) - Static method in class HAL.Util

generates a neighborhood with the set of all coordinates in the circle with center 0,0 and the given radius.

CircleOverlapArea(double, double) - Static method in class HAL.Util

finds the area of overlap between 2 circles of equal radii

CircleOverlapArea(double, double, double) - Static method in class HAL.Util

CleanAgents() - Method in class HAL.GridsAndAgents.AgentGrid0D

cleans the list of agents, removing dead ones, may improve the efficiency of the agent iteration if many agents have died do not call this while in the middle of iteration

CleanAgents() - Method in class HAL.GridsAndAgents.AgentGrid1D

cleans the list of agents, removing dead ones, may improve the efficiency of the agent iteration if many agents have died do not call this while in the middle of iteration

CleanAgents() - Method in class HAL.GridsAndAgents.AgentGrid2D

cleans the list of agents, removing dead ones, may improve the efficiency of the agent iteration if many agents have died do not call this while in the middle of iteration

CleanAgents() - Method in class HAL.GridsAndAgents.AgentGrid3D

cleans the list of agents, removing dead ones, may improve the efficiency of the agent iteration if many agents have died do not call this while in the middle of iteration

CleanAgents() - Method in class HAL.GridsAndAgents.AgentList

may speed up AgentList iteration if many agents from the AgentList have died recently

CleanShuffle(Rand) - Method in class HAL.GridsAndAgents.AgentGrid0D

calls CleanAgents, then ShuffleAgents

CleanShuffle(Rand) - Method in class HAL.GridsAndAgents.AgentGrid1D

calls CleanAgents, then ShuffleAgents

CleanShuffle(Rand) - Method in class HAL.GridsAndAgents.AgentGrid2D

calls CleanAgents, then ShuffleAgents

CleanShuffle(Rand) - Method in class HAL.GridsAndAgents.AgentGrid3D

calls CleanAgents, then ShuffleAgents

CleanShuffle(Rand) - Method in class HAL.GridsAndAgents.AgentList

Clear() - Method in class HAL.Gui.UIPlot

Clear(double, double, double, double) - Method in class HAL.Gui.UIPlot

Clear(int) - Method in class HAL.Gui.OpenGL2DWindow

usually called before any other draw commands, sets the screen to a color.

Clear(int) - Method in class HAL.Gui.OpenGL3DWindow

usually called before any other draw commands, sets the screen to a color.

Clear(int) - Method in class HAL.Gui.UIGrid

sets all pixels to a single color.

ClearBox(int, int) - Method in class HAL.Gui.OpenGL3DWindow

usually called before any other draw commands, sets the screen to a color.

ClickXpt(MouseEvent) - Method in class HAL.Gui.UIGrid

gets the X coordinate of the mouse event in terms of the UIGrid coordinate space, useful with AddMouseListeners

ClickXsq(MouseEvent) - Method in class HAL.Gui.UIGrid

gets the X square of the mouse event in terms of the UIGrid coordinate space, useful with AddMouseListeners

ClickYpt(MouseEvent) - Method in class HAL.Gui.UIGrid

gets the Y coordinate of the mouse event in terms of the UIGrid coordinate space, useful with AddMouseListeners

ClickYsq(MouseEvent) - Method in class HAL.Gui.UIGrid

gets the Y square of the mouse event in terms of the UIGrid coordinate space, useful with AddMouseListeners

Close() - Method in class HAL.Gui.GifMaker

Close this GifMaker object

Close() - Method in class HAL.Gui.GridWindow

disposes of the GridWindow.

Close() - Method in class HAL.Gui.OpenGL2DWindow

closes the gui

Close() - Method in class HAL.Gui.OpenGL3DWindow

closes the gui

Close() - Method in class HAL.Gui.UIWindow

destroys the gui with the window closing event

Close() - Method in class HAL.Tools.FileIO

used to Close the file.

ColorIntGenerator - Interface in HAL.Interfaces

ColorMap(double, double, double, int, int) - Static method in class HAL.Util

interpoloates value from min to max to between any pair of colors

ColorMap(double, int, int) - Static method in class HAL.Util

interpoloates value from 0 to 1 to between any pair of colors

ColorMap2D(double, double, int, int, int, int) - Static method in class HAL.Util

interpoloates coordinate pairs from 0 to 1 to between a box with any 4 corner colors

ColorString(int) - Static method in class HAL.Util

returns the RGBA components of the color as a string

ColorToHSB(int, float[]) - Static method in class HAL.Util

puts the HSB components [hue, saturation, brightness] of the RGB color into the ret array

ColtInt(int, double, Rand) - Method in class HAL.Tools.Internal.Binomial

ColtInt(Rand) - Method in class HAL.Tools.Internal.Binomial

ColtLong(long, double, Rand) - Method in class HAL.Tools.Internal.Binomial

ColtLong(Rand) - Method in class HAL.Tools.Internal.Binomial

Compare(int, int) - Method in interface HAL.Interfaces.IsEntry1Before2

Compare(int, int) - Method in interface HAL.Interfaces.Sortable

should return a positive number if first > second, negative if second > first, 0 if equal

compX - Variable in class HAL.Gui.UIGrid

compX() - Method in class HAL.Gui.UIBoolInput

ignore

compX() - Method in class HAL.Gui.UIButton

ignore

compX() - Method in class HAL.Gui.UIComboBoxInput

ignore

compX() - Method in class HAL.Gui.UIDoubleInput

ignore

compX() - Method in class HAL.Gui.UIFileChooserInput

ignore

compX() - Method in class HAL.Gui.UIGrid

gets the xDim component of the vis window

compX() - Method in class HAL.Gui.UIIntInput

ignore

compX() - Method in class HAL.Gui.UILabel

gets the xDim component of the label

compX() - Method in class HAL.Gui.UIPlot

compX() - Method in class HAL.Gui.UIStringInput

ignore

compX() - Method in interface HAL.Interfaces.GuiComp

compY - Variable in class HAL.Gui.UIGrid

compY() - Method in class HAL.Gui.UIBoolInput

ignore

compY() - Method in class HAL.Gui.UIButton

ignore

compY() - Method in class HAL.Gui.UIComboBoxInput

ignore

compY() - Method in class HAL.Gui.UIDoubleInput

ignore

compY() - Method in class HAL.Gui.UIFileChooserInput

ignore

compY() - Method in class HAL.Gui.UIGrid

gets the yDim component of the vis window

compY() - Method in class HAL.Gui.UIIntInput

ignore

compY() - Method in class HAL.Gui.UILabel

gets the yDim component of the label

compY() - Method in class HAL.Gui.UIPlot

compY() - Method in class HAL.Gui.UIStringInput

ignore

compY() - Method in interface HAL.Interfaces.GuiComp

Concat(T[], T[]) - Static method in class HAL.Util

Returns a new array that is the first array with the second concatenated to the end of it

ContainsValidI(int[], int, int, int, Coords3DBool) - Method in interface HAL.Interfaces.Grid3D

returns whether a valid index exists in the neighborhood

ContainsValidI(int[], int, int, Coords2DBool) - Method in interface HAL.Interfaces.Grid2D

returns whether a valid index exists in the neighborhood

ContainsValidI(int[], int, Coords2DBool) - Method in interface HAL.Interfaces.Grid2D

returns whether a valid index exists in the neighborhood

ContainsValidI(int[], int, Coords3DBool) - Method in interface HAL.Interfaces.Grid3D

returns whether a valid index exists in the neighborhood

ContainsValidI(int[], int, IndexBool) - Method in interface HAL.Interfaces.Grid1D

returns whether a valid index exists in the neighborhood

ConvI(int, Grid3D) - Method in interface HAL.Interfaces.Grid3D

returns the index of the center of the square in otherGrid that the coordinate maps to.

ConvXpt(double, Grid3D) - Method in interface HAL.Interfaces.Grid3D

returns the position that x rescales to in the other grid

ConvXsq(int, Grid3D) - Method in interface HAL.Interfaces.Grid3D

returns the index of the center of the square in otherGrid that the coordinate maps to.

ConvYpt(double, Grid3D) - Method in interface HAL.Interfaces.Grid3D

returns the position that y rescales to in the other grid

ConvYsq(int, Grid3D) - Method in interface HAL.Interfaces.Grid3D

returns the index of the center of the square in otherGrid that the coordinate maps to.

ConvZpt(double, Grid3D) - Method in interface HAL.Interfaces.Grid3D

returns the position that z rescales to in the other grid

ConvZsq(int, Grid3D) - Method in interface HAL.Interfaces.Grid3D

returns the index of the center of the square in otherGrid that the coordinate maps to.

Coords1DBool - Interface in HAL.Interfaces

Coords1DDouble - Interface in HAL.Interfaces

Coords1DInt - Interface in HAL.Interfaces

Coords2DAction - Interface in HAL.Interfaces

Coords2DBool - Interface in HAL.Interfaces

Coords2DColor - Interface in HAL.Interfaces

Coords2DDouble - Interface in HAL.Interfaces

Coords2DInt - Interface in HAL.Interfaces

Coords2DSetArray - Interface in HAL.Interfaces

Created by Rafael on 10/20/2017.

Coords3DAction - Interface in HAL.Interfaces

Coords3DBool - Interface in HAL.Interfaces

Coords3DDouble - Interface in HAL.Interfaces

Coords3DInt - Interface in HAL.Interfaces

Coords3DSetArray - Interface in HAL.Interfaces

Created by Rafael on 10/20/2017.

Coords6DDouble - Interface in HAL.Interfaces

Copy() - Method in class HAL.Tools.BoolSet

CopyTo(int[]) - Method in class HAL.GridsAndAgents.PopulationGridBase

CopyTo(int[]) - Method in class HAL.GridsAndAgents.PopulationGridLongBase

CopyTo(Grid2Dint) - Method in class HAL.GridsAndAgents.PopulationGridBase

CopyTo(Grid2Dint) - Method in class HAL.GridsAndAgents.PopulationGridLongBase

CountModsWithMethod(String) - Method in class HAL.Tools.Modularity.ModuleSetManager

CreateNextGen(T[], double[], int) - Method in interface HAL.Interfaces.GAMutationFunction

CustomSerialization - Interface in HAL.Interfaces

CYAN - Static variable in class HAL.Util

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