import Assembly from 'ngl/src/symmetry/assembly.js'

public class | source

Assembly

Assembly of transformed parts of a Structure

Constructor Summary

Public Constructor
public	constructor(name: String)

Member Summary

Public Members
public	name
public	partList
public get	type

Method Summary

Public Methods
public	addPart(matrixList: Matrix4[], chainList: String[]): AssemblyPart Add transformed parts to the assembly
public	getAtomCount(structure: Structure): Integer Get the number of atom for a given structure
public	getBoundingBox()
public	getCenter()
public	getInstanceCount(): Integer Get number of instances the assembly will produce, i.e.
public	getResidueCount(structure: Structure): Integer Get the number of residues for a given structure
public	getSelection()
public	isIdentity(structure: Structure): Boolean Determine if the assembly is the full and untransformed structure

Private Methods
private	_getCount()

Public Constructors

public constructor(name: String) source

Params:

Name	Type	Attribute	Description
name	String		assembly name

Public Members

public name source

public partList source

public get type source

Public Methods

public addPart(matrixList: Matrix4[], chainList: String[]): AssemblyPart source

Add transformed parts to the assembly

Params:

Name	Type	Attribute	Description
matrixList	Matrix4[]		array of 4x4 transformation matrices
chainList	String[]		array of chain names

Return:

AssemblyPart

the added assembly part

Example:

var m1 = new NGL.Matrix4().set( ... );
var m2 = new NGL.Matrix4().set( ... );
var assembly = new NGL.Assembly( "myAssembly" );
// add part that transforms chain 'A' and 'B' using matrices `m1` and `m2`
assembly.addPart( [ m1, m2 ], [ "A", "B" ] )

public getAtomCount(structure: Structure): Integer source

Get the number of atom for a given structure

Params:

Name	Type	Attribute	Description
structure	Structure		the given structure

Return:

Integer

number of atoms in the assembly

public getBoundingBox() source

public getCenter() source

public getInstanceCount(): Integer source

Get number of instances the assembly will produce, i.e. the number of transformations performed by the assembly

Return:

Integer

number of instances

public getResidueCount(structure: Structure): Integer source

Get the number of residues for a given structure

Params:

Name	Type	Attribute	Description
structure	Structure		the given structure

Return:

Integer

number of residues in the assembly

public getSelection() source

public isIdentity(structure: Structure): Boolean source

Determine if the assembly is the full and untransformed structure

Params:

Name	Type	Attribute	Description
structure	Structure		the given structure

Assembly

Constructor Summary

Member Summary

Method Summary

Public Constructors

public constructor(name: String) source

Params:

Public Members

public name source

public partList source

public get type source

Public Methods

public addPart(matrixList: Matrix4[], chainList: String[]): AssemblyPart source

Params:

Return:

Example:

public getAtomCount(structure: Structure): Integer source

Params:

Return:

public getBoundingBox() source

public getCenter() source

public getInstanceCount(): Integer source

Return:

public getResidueCount(structure: Structure): Integer source

Params:

Return:

public getSelection() source

public isIdentity(structure: Structure): Boolean source

Params:

Return:

Private Methods

private _getCount() source