Collaboration diagram for Ribbons:

Public Member Functions
void	CreateRibbons ()

Static Public Member Functions
static void	InitCol ()

static Color32	GetColorChain (string type)

Public Attributes
List< int >	handedlist = new List<int> ()

List< int >	sslist = new List<int> ()

Static Public Attributes
static bool	mustSplitDictList = false

static string	ribbontag = "RibbonObjA"

static ColorObject	HELIX_COLOR = new ColorObject(new Color32(255,0,0,255))

static ColorObject	STRAND_COLOR = new ColorObject(new Color32(0,0,255,255))

static ColorObject	COIL_COLOR = new ColorObject(new Color32(255,255,255,255))

static ColorObject	ChainColorA = new ColorObject(new Color32( 10, 3,200,50))

static ColorObject	ChainColorB = new ColorObject(new Color32( 10,170, 34,50))

static ColorObject	ChainColorC = new ColorObject(new Color32( 0,150,150,50))

static ColorObject	ChainColorD = new ColorObject(new Color32( 0,180, 0,50))

static ColorObject	ChainColorE = new ColorObject(new Color32( 0,170,200,50))

static float	HELIX_DIAM = 1.8f

static float	THICKNESS = 0.3f

static float	ARROW_WIDTH = 1.8f

static float[]	ribbonWidth = {1.5f, 1.7f, 0.3f}

Private Member Functions
float	CalculateTorsionalAngle (Vector3 at0, Vector3 at1, Vector3 at2, Vector3 at3, bool print)

float	WeirdDistance (float x1, float y1, float x2, float y2)

void	CalculateSecondaryStructures (List< Dictionary< string, Vector3 >> residueDicts, int[] ss, int[] handedness)

Vector3	LinearComb (float scalar0, Vector3 vector0, float scalar1, Vector3 vector1)

void	AddControlPoints (Vector3 ca0, Vector3 ox0, Vector3 ca1, int ss, int handedness)

void	ShiftControlPoints ()

void	ConstructControlPoints (List< Dictionary< string, Vector3 >> residueDicts, int res, int ss, int handedness)

void	GenerateSpline (int n, List< Vector3 > vertices)

void	GenerateArrowRibbon (List< Vector3 > vertices, List< Vector3 > normals, List< int > triangles)

void	GenerateFlatRibbon (List< Vector3 > vertices, List< Vector3 > normals, List< int > triangles)

List< int >	Copy (List< int > l)

void	CreateRibbons (List< Dictionary< string, Vector3 >> residueDicts, List< int > sslist, List< int >handedlist)

List< float[]>	FindHelix (string chain)

List< float[]>	FindStrand (string chain)

int	ComputeNbRes (string chain)

List< float[]>	SortStrand (List< float[]> tmpstrandlist)

void	CreateSSlist (ref List< int > sslist, ref List< int > handednesslist)

Private Attributes
Vector3	flipTestV

BSpline	splineCenter

BSpline	splineSide1

BSpline	splineSide2

int	uspacing

int	vIndex

bool	createss = false

const int	HELIX = 0

const int	STRAND = 1

const int	COIL = 2

const int	LHANDED = -1

const int	RHANDED = 1

int	firstresnb = Molecule.Model.MoleculeModel.firstresnb

Static Private Attributes
static string	currentchain = ""

static int	RIBBON_DETAIL = 4

static int	RENDER_MODE = 1

static Dictionary< string, Color32 >	ss_chain_col = null

Detailed Description

Definition at line 5 of file Ribbons.cs.

Member Function Documentation

void Ribbons.AddControlPoints	(	Vector3	ca0,
		Vector3	ox0,
		Vector3	ca1,
		int	ss,
		int	handedness
	)

private

Definition at line 191 of file Ribbons.cs.

References BSpline.GetCPoint(), LinearComb(), and BSpline.SetCPoint().

Referenced by ConstructControlPoints().

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void Ribbons.CalculateSecondaryStructures	(	List< Dictionary< string, Vector3 >>	residueDicts,
		int[]	ss,
		int[]	handedness
	)

private

Definition at line 84 of file Ribbons.cs.

References CalculateTorsionalAngle(), COIL, HELIX, LHANDED, RHANDED, STRAND, and WeirdDistance().

Referenced by CreateRibbons().

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float Ribbons.CalculateTorsionalAngle	(	Vector3	at0,
		Vector3	at1,
		Vector3	at2,
		Vector3	at3,
		bool	print
	)

private

Definition at line 46 of file Ribbons.cs.

Referenced by CalculateSecondaryStructures().

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int Ribbons.ComputeNbRes ( string chain )

private

Definition at line 1092 of file Ribbons.cs.

References Molecule.Model.MoleculeModel.resChainList2.

Referenced by CreateSSlist().

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void Ribbons.ConstructControlPoints	(	List< Dictionary< string, Vector3 >>	residueDicts,
		int	res,
		int	ss,
		int	handedness
	)

private

Definition at line 245 of file Ribbons.cs.

References AddControlPoints(), BSpline.CopyCPoints(), BSpline.GetCPoint(), LinearComb(), BSpline.SetCPoint(), ShiftControlPoints(), and BSpline.UpdateMatrix3().

Referenced by CreateRibbons().

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List<int> Ribbons.Copy ( List< int > l )

private

Definition at line 861 of file Ribbons.cs.

Referenced by CreateRibbons().

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void Ribbons.CreateRibbons ( )

Definition at line 869 of file Ribbons.cs.

References Copy(), CreateSSlist(), currentchain, Molecule.Model.MoleculeModel.firstresnb, Molecule.Model.MoleculeModel.resChainList2, Molecule.Model.MoleculeModel.residueDictionaries, Molecule.Model.MoleculeModel.splits, Molecule.Model.MoleculeModel.ssHelixList, and Molecule.Model.MoleculeModel.ssStrandList.

Referenced by SecondaryStructureManager.CreateRibbons().

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void Ribbons.CreateRibbons	(	List< Dictionary< string, Vector3 >>	residueDicts,
		List< int >	sslist,
		List< int >	handedlist
	)

private

Definition at line 936 of file Ribbons.cs.

References CalculateSecondaryStructures(), ColorObject.color, ConstructControlPoints(), GenerateArrowRibbon(), GenerateFlatRibbon(), PostProcessing.GenerateMeshes(), GenerateSpline(), GetColorChain(), HELIX, InitCol(), SecondaryStructureOldGUI.ssColChain, SecondaryStructureOldGUI.ssDivCol, and STRAND.

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void Ribbons.CreateSSlist	(	ref List< int >	sslist,
		ref List< int >	handednesslist
	)

private

Creates secondary structure list and handedness list using ss informations from the pdb file.

Parameters

sslist	Sslist.
handednesslist	Handednesslist.

Definition at line 1138 of file Ribbons.cs.

References ComputeNbRes(), Molecule.Model.MoleculeModel.existingChain, FindHelix(), FindStrand(), firstresnb, UI.UIData.guided, and SortStrand().

Referenced by CreateRibbons().

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List<float[]> Ribbons.FindHelix ( string chain )

private

Finds helices by chain in ssHelixList (informations from the pdb file).

Returns: A list of helix.

Parameters

chain Chain.

Definition at line 1058 of file Ribbons.cs.

References Molecule.Model.MoleculeModel.helixChainList, and Molecule.Model.MoleculeModel.ssHelixList.

Referenced by CreateSSlist().

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List<float[]> Ribbons.FindStrand ( string chain )

private

Find strands by chain in ssStrandList (informations from the pdb file).

Returns: A list of strand.

Parameters

chain Chain.

Definition at line 1079 of file Ribbons.cs.

References Molecule.Model.MoleculeModel.ssStrandList, and Molecule.Model.MoleculeModel.strandChainList.

Referenced by CreateSSlist().

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void Ribbons.GenerateArrowRibbon	(	List< Vector3 >	vertices,
		List< Vector3 >	normals,
		List< int >	triangles
	)

private

Definition at line 363 of file Ribbons.cs.

References ARROW_WIDTH, BSpline.Deval(), and BSpline.Feval().

Referenced by CreateRibbons().

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void Ribbons.GenerateFlatRibbon	(	List< Vector3 >	vertices,
		List< Vector3 >	normals,
		List< int >	triangles
	)

private

Definition at line 634 of file Ribbons.cs.

References BSpline.Deval(), and BSpline.Feval().

Referenced by CreateRibbons().

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void Ribbons.GenerateSpline	(	int	n,
		List< Vector3 >	vertices
	)

private

Definition at line 330 of file Ribbons.cs.

References BSpline.Feval().

Referenced by CreateRibbons().

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static Color32 Ribbons.GetColorChain ( string type )

static

Definition at line 1226 of file Ribbons.cs.

Referenced by SurfaceManager.ColorVertices(), and CreateRibbons().

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static void Ribbons.InitCol ( )

static

Definition at line 1208 of file Ribbons.cs.

References ColorObject.color.

Referenced by SurfaceManager.ColorVertices(), and CreateRibbons().

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Vector3 Ribbons.LinearComb	(	float	scalar0,
		Vector3	vector0,
		float	scalar1,
		Vector3	vector1
	)

private

Definition at line 186 of file Ribbons.cs.

Referenced by AddControlPoints(), and ConstructControlPoints().

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void Ribbons.ShiftControlPoints ( )

private

Definition at line 238 of file Ribbons.cs.

References BSpline.ShiftBSplineCPoints().

Referenced by ConstructControlPoints().

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List<float[]> Ribbons.SortStrand ( List< float[]> tmpstrandlist )

private

Definition at line 1105 of file Ribbons.cs.

Referenced by CreateSSlist().

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float Ribbons.WeirdDistance	(	float	x1,
		float	y1,
		float	x2,
		float	y2
	)

private

Definition at line 78 of file Ribbons.cs.

Referenced by CalculateSecondaryStructures().

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Member Data Documentation

float Ribbons.ARROW_WIDTH = 1.8f

static

Definition at line 42 of file Ribbons.cs.

Referenced by GenerateArrowRibbon(), SecondaryStructureOldGUI.SecStructMenu(), and SecSGUI.UpdateRibbonsProp().

ColorObject Ribbons.ChainColorA = new ColorObject(new Color32( 10, 3,200,50))

static

Definition at line 34 of file Ribbons.cs.

Referenced by UI.GUIDisplay.ChangeAllColors(), and SecondaryStructureOldGUI.SecStructMenu().

ColorObject Ribbons.ChainColorB = new ColorObject(new Color32( 10,170, 34,50))

static

Definition at line 35 of file Ribbons.cs.

Referenced by UI.GUIDisplay.ChangeAllColors(), and SecondaryStructureOldGUI.SecStructMenu().

ColorObject Ribbons.ChainColorC = new ColorObject(new Color32( 0,150,150,50))

static

Definition at line 36 of file Ribbons.cs.

Referenced by UI.GUIDisplay.ChangeAllColors(), and SecondaryStructureOldGUI.SecStructMenu().

ColorObject Ribbons.ChainColorD = new ColorObject(new Color32( 0,180, 0,50))

static

Definition at line 37 of file Ribbons.cs.

Referenced by UI.GUIDisplay.ChangeAllColors(), and SecondaryStructureOldGUI.SecStructMenu().

ColorObject Ribbons.ChainColorE = new ColorObject(new Color32( 0,170,200,50))

static

Definition at line 38 of file Ribbons.cs.

Referenced by UI.GUIDisplay.ChangeAllColors(), and SecondaryStructureOldGUI.SecStructMenu().

const int Ribbons.COIL = 2

private

Definition at line 23 of file Ribbons.cs.

Referenced by CalculateSecondaryStructures().

ColorObject Ribbons.COIL_COLOR = new ColorObject(new Color32(255,255,255,255))

static

Definition at line 32 of file Ribbons.cs.

Referenced by UI.GUIDisplay.ChangeAllColors(), SecondaryStructureOldGUI.SecStructMenu(), and SecSGUI.Start().

bool Ribbons.createss = false

private

Definition at line 17 of file Ribbons.cs.

string Ribbons.currentchain = ""

staticprivate

Definition at line 19 of file Ribbons.cs.

Referenced by CreateRibbons().

int Ribbons.firstresnb = Molecule.Model.MoleculeModel.firstresnb

private

Definition at line 1131 of file Ribbons.cs.

Referenced by CreateSSlist().

Vector3 Ribbons.flipTestV

private

Definition at line 8 of file Ribbons.cs.

List<int> Ribbons.handedlist = new List<int> ()

Definition at line 15 of file Ribbons.cs.

const int Ribbons.HELIX = 0

private

Definition at line 21 of file Ribbons.cs.

Referenced by CalculateSecondaryStructures(), and CreateRibbons().

ColorObject Ribbons.HELIX_COLOR = new ColorObject(new Color32(255,0,0,255))

static

Definition at line 30 of file Ribbons.cs.

Referenced by UI.GUIDisplay.ChangeAllColors(), SecondaryStructureOldGUI.SecStructMenu(), and SecSGUI.Start().

float Ribbons.HELIX_DIAM = 1.8f

static

Definition at line 40 of file Ribbons.cs.

Referenced by SecondaryStructureOldGUI.SecStructMenu(), and SecSGUI.UpdateRibbonsProp().

const int Ribbons.LHANDED = -1

private

Definition at line 24 of file Ribbons.cs.

Referenced by CalculateSecondaryStructures().

bool Ribbons.mustSplitDictList = false

static

Definition at line 7 of file Ribbons.cs.

Referenced by ParsePDB.ReadPDB2().

int Ribbons.RENDER_MODE = 1

staticprivate

Definition at line 28 of file Ribbons.cs.

const int Ribbons.RHANDED = 1

private

Definition at line 25 of file Ribbons.cs.

Referenced by CalculateSecondaryStructures().

int Ribbons.RIBBON_DETAIL = 4

staticprivate

Definition at line 27 of file Ribbons.cs.

string Ribbons.ribbontag = "RibbonObjA"

static

Definition at line 18 of file Ribbons.cs.

Referenced by PostProcessing.GenerateMeshes().

float [] Ribbons.ribbonWidth = {1.5f, 1.7f, 0.3f}

static

Definition at line 44 of file Ribbons.cs.

Referenced by SecondaryStructureOldGUI.SecStructMenu(), and SecSGUI.UpdateRibbonsProp().

BSpline Ribbons.splineCenter

private

Definition at line 9 of file Ribbons.cs.

BSpline Ribbons.splineSide1

private

Definition at line 10 of file Ribbons.cs.

BSpline Ribbons.splineSide2

private

Definition at line 11 of file Ribbons.cs.

Dictionary<string, Color32> Ribbons.ss_chain_col = null

staticprivate

Definition at line 1206 of file Ribbons.cs.

List<int> Ribbons.sslist = new List<int> ()

Definition at line 16 of file Ribbons.cs.

const int Ribbons.STRAND = 1

private

Definition at line 22 of file Ribbons.cs.

Referenced by CalculateSecondaryStructures(), and CreateRibbons().

ColorObject Ribbons.STRAND_COLOR = new ColorObject(new Color32(0,0,255,255))

static

Definition at line 31 of file Ribbons.cs.

Referenced by UI.GUIDisplay.ChangeAllColors(), SecondaryStructureOldGUI.SecStructMenu(), and SecSGUI.Start().

float Ribbons.THICKNESS = 0.3f

static

Definition at line 41 of file Ribbons.cs.

Referenced by SecondaryStructureOldGUI.SecStructMenu(), and SecSGUI.UpdateRibbonsProp().

int Ribbons.uspacing

private

Definition at line 12 of file Ribbons.cs.

int Ribbons.vIndex

private

Definition at line 13 of file Ribbons.cs.

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

Assets/Scripts/SecondaryStructures/Ribbons.cs

Public Member Functions

Static Public Member Functions

Public Attributes

Static Public Attributes

Private Member Functions

Private Attributes

Static Private Attributes

Detailed Description

Member Function Documentation

Member Data Documentation