Class UnfParser

Parser processing UNF files

see: https://github.com/barisicgroup/unf

Hierarchy

Parser
- UnfParser

Indexable

[k: string]: any

Parser processing UNF files

see: https://github.com/barisicgroup/unf

Index

Constructors

constructor

Properties

Accessors

Methods

Constructors

constructor

new UnfParser(streamer: Streamer, params?: Partial<UnfParserParams>): UnfParser

Overrides Parser.constructor
- Defined in backend/src/catana/parsers/unf-parser.ts:53
Parameters
- streamer: Streamer
- Optional params: Partial<UnfParserParams>
Returns UnfParser

Properties

Private lastProcessedAllAtomStructures

lastProcessedAllAtomStructures: Structure[]

Private lastProcessedJsonPart

lastProcessedJsonPart: string

Private latticeOriginAtCenterOfMass

latticeOriginAtCenterOfMass: boolean

name

name: string

Private overrideNtypeToRandom

overrideNtypeToRandom: boolean

path

path: string

sceneData

sceneData: MultiObjectsStorage

streamer

streamer: Streamer

Private Readonly supportedUnfVersion

supportedUnfVersion: "1.0" = "1.0"

Accessors

__objName

get __objName(): string

Overrides Parser.__objName
- Defined in backend/src/catana/parsers/unf-parser.ts:66
Returns string

isBinary

get isBinary(): boolean

Inherited from Parser.isBinary
- Defined in backend/src/parser/parser.ts:33
Returns boolean

isJson

get isJson(): boolean

Inherited from Parser.isJson
- Defined in backend/src/parser/parser.ts:34
Returns boolean

isXml

get isXml(): boolean

Inherited from Parser.isXml
- Defined in backend/src/parser/parser.ts:35
Returns boolean

type

get type(): string

Overrides Parser.type
- Defined in backend/src/catana/parsers/unf-parser.ts:62
Returns string

Methods

_afterParse

_afterParse(): void

Inherited from Parser._afterParse
- Defined in backend/src/parser/parser.ts:50
Returns void

_beforeParse

_beforeParse(): void

Inherited from Parser._beforeParse
- Defined in backend/src/parser/parser.ts:48
Returns void

_parse

_parse(): void

Overrides Parser._parse
- Defined in backend/src/catana/parsers/unf-parser.ts:83
Returns void

Private extractJsonPartFromUNF

extractJsonPartFromUNF(unfFileContent: string, pdbFilesContents: [string, string][]): string

- Defined in backend/src/catana/parsers/unf-parser.ts:347
Parameters
- unfFileContent: string
- pdbFilesContents: [string, string][]
Returns string

Private getVisProperties

getVisProperties(unfJson: any, id: number): VisualizationProperties | undefined

- Defined in backend/src/catana/parsers/unf-parser.ts:430
Parameters
- unfJson: any
- id: number
Returns VisualizationProperties | undefined

Private insertLatticeBasedNucleotide

insertLatticeBasedNucleotide(parentStrand: CgNucleicAcidStrand, globalId: number, nbType: NucleobaseType, lattice: Lattice, vhelix: any, cell: any, angUnitsConv: UnitsConverter): CgNucleotideProxy

- Defined in backend/src/catana/parsers/unf-parser.ts:382
Parameters
- parentStrand: CgNucleicAcidStrand
- globalId: number
- nbType: NucleobaseType
- lattice: Lattice
- vhelix: any
- cell: any
- angUnitsConv: UnitsConverter
Returns CgNucleotideProxy

parse

parse(): Promise<any>

Overrides Parser.parse
- Defined in backend/src/catana/parsers/unf-parser.ts:75
Returns Promise<any>

Private parseProcessedFiles

parseProcessedFiles(processedData: any[]): any

- Defined in backend/src/catana/parsers/unf-parser.ts:337
Parameters
- processedData: any[]
Returns any

Private processIncludedFiles

processIncludedFiles(): Promise<any>

- Defined in backend/src/catana/parsers/unf-parser.ts:330
Returns Promise<any>

Private processPDBs

processPDBs(pdbFilesContents: [string, string][]): Promise<any>[]

- Defined in backend/src/catana/parsers/unf-parser.ts:368
Parameters
- pdbFilesContents: [string, string][]
Returns Promise<any>[]

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