PDBtoDEN Class Reference

Inheritance diagram for PDBtoDEN:

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Public Member Functions
void	TranPDBtoDEN (float resolution=DEFAULT_RESOLUTION, bool cap=true)

Static Public Member Functions
static void	ProSurface (float seuil)
static void	initColors (int X, int Y, int Z, Color col)

Static Public Attributes
static Color[]	colors
static int	X
static int	Y
static int	Z
static Vector3	fudgeFactor = new Vector3(18f,18f,18f)
static Vector3	delta
static Vector3	origin

Properties
static float[,,]	GridS [get]

Private Member Functions
float	CapResolution (float resolution)

Private Attributes
const float	DEFAULT_RESOLUTION = 2.75f

Static Private Attributes
static float[,,]	gridS
static Color[,,]	VertColor

Detailed Description

Definition at line 74 of file PDBtoDEN.cs.

Member Function Documentation

float PDBtoDEN.CapResolution ( float  resolution )

private

First we lower the resolution for bigger molecules.

Perhaps this could be exposed to the interface, but it might cause users to choose unreasonable values. Bear in mind that the "threshold" value in VertexTree effectively caps the resolution of the final mesh, but not of the original voxels, or of the MarchingCubes algorithm itself. So they serve slightly different purposes.

Returns

The resolution.

Definition at line 113 of file PDBtoDEN.cs.

References Molecule.Model.MoleculeModel.atomsLocationlist.

Referenced by TranPDBtoDEN().

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static void PDBtoDEN.initColors ( int  X, int  Y, int  Z, Color  col  )

static

Definition at line 377 of file PDBtoDEN.cs.

References X, Y, and Z.

static void PDBtoDEN.ProSurface ( float  seuil )

static

Definition at line 340 of file PDBtoDEN.cs.

References GenerateMesh.CreateSurfaceObjects(), X, Y, and Z.

Referenced by SurfaceManager.GenerateSurface(), and SurfaceManager.GenerateSurfaceBfact().

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void PDBtoDEN.TranPDBtoDEN	(	float	resolution = DEFAULT_RESOLUTION,
		bool	cap = true
	)

Definition at line 141 of file PDBtoDEN.cs.

References Molecule.Model.MoleculeModel.atomHetTypeList, Molecule.Model.MoleculeModel.atomsLocationlist, Molecule.Model.MoleculeModel.atomsResnamelist, Molecule.Model.MoleculeModel.atomsTypelist, Molecule.Model.MoleculeModel.BFactorList, CapResolution(), Molecule.Model.MoleculeModel.carbonColor, ColorObject.color, Molecule.Model.MoleculeModel.hydrogenColor, Molecule.Model.MoleculeModel.MaxValue, Molecule.Model.MoleculeModel.MinValue, Molecule.Model.MoleculeModel.nitrogenColor, Molecule.Model.MoleculeModel.oxygenColor, Molecule.Model.MoleculeModel.phosphorusColor, Molecule.Model.MoleculeModel.sugarResname, Molecule.Model.MoleculeModel.sulphurColor, UI.UIData.toggleBfac, UI.UIData.toggleSurf, Molecule.Model.MoleculeModel.unknownColor, SurfaceManager.useHetatmForSurface, SurfaceManager.useSugarForSurface, X, Y, and Z.

Referenced by AmbientOcclusion.AmbientOcclusion(), SurfaceManager.GenerateSurface(), SurfaceManager.GenerateSurfaceBfact(), and VolumetricDensity.Init().

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Member Data Documentation

Color [] PDBtoDEN.colors

static

Definition at line 82 of file PDBtoDEN.cs.

const float PDBtoDEN.DEFAULT_RESOLUTION = 2.75f

private

Definition at line 96 of file PDBtoDEN.cs.

Vector3 PDBtoDEN.delta

static

Definition at line 92 of file PDBtoDEN.cs.

Referenced by VolumetricDensity.Init().

Vector3 PDBtoDEN.fudgeFactor = new Vector3(18f,18f,18f)

static

Definition at line 90 of file PDBtoDEN.cs.

Referenced by AmbientOcclusion.AmbientOcclusion(), and VolumetricDensity.Init().

float [,,] PDBtoDEN.gridS

staticprivate

Definition at line 75 of file PDBtoDEN.cs.

Vector3 PDBtoDEN.origin

static

Initial value:

= new Vector3(MoleculeModel.MinValue.x,
                                               MoleculeModel.MinValue.y,
                                               MoleculeModel.MinValue.z)

Definition at line 93 of file PDBtoDEN.cs.

Color [,,] PDBtoDEN.VertColor

staticprivate

Definition at line 81 of file PDBtoDEN.cs.

int PDBtoDEN.X

static

Definition at line 84 of file PDBtoDEN.cs.

Referenced by initColors(), ProSurface(), and TranPDBtoDEN().

int PDBtoDEN.Y

static

Definition at line 85 of file PDBtoDEN.cs.

Referenced by initColors(), ProSurface(), and TranPDBtoDEN().

int PDBtoDEN.Z

static

Definition at line 86 of file PDBtoDEN.cs.

Referenced by initColors(), ProSurface(), and TranPDBtoDEN().

Property Documentation

float [,,] PDBtoDEN.GridS

staticget

Definition at line 77 of file PDBtoDEN.cs.

Referenced by AmbientOcclusion.AmbientOcclusion(), and VolumetricDensity.Init().

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The documentation for this class was generated from the following file:

• Assets/Scripts/Surface-Electrostatic/PDBtoDEN.cs