Class PlainAlignmentTrackFactory

Hierarchy

PlainAlignmentTrackFactory

Implements

TrackFactoryInterface<[AlignmentRequestContextType, TargetAlignment]>

Index

Constructors

constructor

new PlainAlignmentTrackFactory(entityInstanceTranslator?): PlainAlignmentTrackFactory
Parameters
- Optional entityInstanceTranslator: PolymerEntityInstanceTranslate
Returns PlainAlignmentTrackFactory
- Defined in src/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/PlainAlignmentTrackFactory.ts:36

Properties

`Private` `Readonly` sequenceTrackFactory

sequenceTrackFactory: SequenceTrackFactory

`Private` `Readonly` trackTitleFactory

trackTitleFactory: TrackTitleFactoryInterface<[AlignmentRequestContextType, TargetAlignment]>

Methods

addAuthorResIds

addAuthorResIds(e, alignmentContext): RcsbFvTrackDataElementInterface
Parameters
- e: RcsbFvTrackDataAnnotationInterface
- alignmentContext: AlignmentContextInterface
Returns RcsbFvTrackDataElementInterface
- Defined in src/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/PlainAlignmentTrackFactory.ts:169

alignedRegionToTrackElementList

alignedRegionToTrackElementList(region, alignmentContext): RcsbFvTrackDataElementInterface[]
Parameters
- region: AlignedRegion
- alignmentContext: AlignmentContextInterface
Returns RcsbFvTrackDataElementInterface[]
- Defined in src/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/PlainAlignmentTrackFactory.ts:142

getAlignmentTrackConfiguration

getAlignmentTrackConfiguration(alignmentQueryContext, targetAlignment, alignedRegionToTrackElementList): {
    alignedBlocks: RcsbFvTrackDataElementInterface[];
    mismatchData: RcsbFvTrackDataElementInterface[];
    sequenceData: RcsbFvTrackDataElementInterface[];
}
Parameters
- alignmentQueryContext: AlignmentRequestContextType
- targetAlignment: TargetAlignment
- alignedRegionToTrackElementList: ((region, alignmentContext) => RcsbFvTrackDataElementInterface[])
  - - (region, alignmentContext): RcsbFvTrackDataElementInterface[]
    - Parameters
      region: AlignedRegion
      alignmentContext: AlignmentContextInterface
      Returns RcsbFvTrackDataElementInterface[]
Returns {
    alignedBlocks: RcsbFvTrackDataElementInterface[];
    mismatchData: RcsbFvTrackDataElementInterface[];
    sequenceData: RcsbFvTrackDataElementInterface[];
}
- alignedBlocks: RcsbFvTrackDataElementInterface[]
- mismatchData: RcsbFvTrackDataElementInterface[]
- sequenceData: RcsbFvTrackDataElementInterface[]
- Defined in src/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/PlainAlignmentTrackFactory.ts:84

getTrack

getTrack(alignmentRequestContext, targetAlignment, alignedRegionToTrackElementList?, alignmentColor?): Promise<RcsbFvRowConfigInterface>
Parameters
- alignmentRequestContext: AlignmentRequestContextType
- targetAlignment: TargetAlignment
- Optional alignedRegionToTrackElementList: ((region, alignmentContext) => RcsbFvTrackDataElementInterface[])
  - - (region, alignmentContext): RcsbFvTrackDataElementInterface[]
    - Parameters
      region: AlignedRegion
      alignmentContext: AlignmentContextInterface
      Returns RcsbFvTrackDataElementInterface[]
- Optional alignmentColor: RcsbFvColorGradient
Returns Promise<RcsbFvRowConfigInterface>
Implementation of TrackFactoryInterface.getTrack
- Defined in src/RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/PlainAlignmentTrackFactory.ts:41

Class PlainAlignmentTrackFactory

Hierarchy

Implements

Index

Constructors

Properties

Methods

Constructors

constructor

Parameters

Optional entityInstanceTranslator: PolymerEntityInstanceTranslate

Returns PlainAlignmentTrackFactory

Properties

Private Readonly sequenceTrackFactory

Private Readonly trackTitleFactory

Methods

addAuthorResIds

Parameters

e: RcsbFvTrackDataAnnotationInterface

alignmentContext: AlignmentContextInterface

Returns RcsbFvTrackDataElementInterface

alignedRegionToTrackElementList

Parameters

region: AlignedRegion

alignmentContext: AlignmentContextInterface

Returns RcsbFvTrackDataElementInterface[]

getAlignmentTrackConfiguration

Parameters

alignmentQueryContext: AlignmentRequestContextType

targetAlignment: TargetAlignment

alignedRegionToTrackElementList: ((region, alignmentContext) => RcsbFvTrackDataElementInterface[])

Parameters

region: AlignedRegion

alignmentContext: AlignmentContextInterface

Returns RcsbFvTrackDataElementInterface[]

Returns { alignedBlocks: RcsbFvTrackDataElementInterface[]; mismatchData: RcsbFvTrackDataElementInterface[]; sequenceData: RcsbFvTrackDataElementInterface[]; }

alignedBlocks: RcsbFvTrackDataElementInterface[]

mismatchData: RcsbFvTrackDataElementInterface[]

sequenceData: RcsbFvTrackDataElementInterface[]

getTrack

Parameters

alignmentRequestContext: AlignmentRequestContextType

targetAlignment: TargetAlignment

Optional alignedRegionToTrackElementList: ((region, alignmentContext) => RcsbFvTrackDataElementInterface[])

Parameters

region: AlignedRegion

alignmentContext: AlignmentContextInterface

Returns RcsbFvTrackDataElementInterface[]

Optional alignmentColor: RcsbFvColorGradient

Returns Promise<RcsbFvRowConfigInterface>

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`Optional` entityInstanceTranslator: PolymerEntityInstanceTranslate

`Private` `Readonly` sequenceTrackFactory

`Private` `Readonly` trackTitleFactory

Returns {
alignedBlocks: RcsbFvTrackDataElementInterface[];
mismatchData: RcsbFvTrackDataElementInterface[];
sequenceData: RcsbFvTrackDataElementInterface[];
}

`Optional` alignedRegionToTrackElementList: ((region, alignmentContext) => RcsbFvTrackDataElementInterface[])

`Optional` alignmentColor: RcsbFvColorGradient