@rcsb/rcsb-saguaro-app
Version:
RCSB 1D Saguaro Web App
57 lines (56 loc) • 3.76 kB
JavaScript
;
Object.defineProperty(exports, "__esModule", { value: true });
exports.RcsbFvInstance = void 0;
const tslib_1 = require("tslib");
const GqlTypes_1 = require("@rcsb/rcsb-api-tools/lib/RcsbGraphQL/Types/Borrego/GqlTypes");
const RcsbFvAbstractModule_1 = require("./RcsbFvAbstractModule");
const BuriedResidues_1 = require("../../RcsbUtils/TrackGenerators/BuriedResidues");
const SequenceTrackFactory_1 = require("../RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/SequenceTrackFactory");
const InstanceSequenceTrackTitleFactory_1 = require("../RcsbFvFactories/RcsbFvTrackFactory/TrackTitleFactoryImpl/InstanceSequenceTrackTitleFactory");
const Assertions_1 = require("../../RcsbUtils/Helpers/Assertions");
var assertDefined = Assertions_1.Assertions.assertDefined;
class RcsbFvInstance extends RcsbFvAbstractModule_1.RcsbFvAbstractModule {
protectedBuild() {
return tslib_1.__awaiter(this, void 0, void 0, function* () {
var _a, _b, _c, _d;
const buildConfig = this.buildConfig;
const instanceId = buildConfig.instanceId;
assertDefined(instanceId);
const source = [GqlTypes_1.AnnotationReference.PdbEntity, GqlTypes_1.AnnotationReference.PdbInstance, GqlTypes_1.AnnotationReference.Uniprot];
const alignmentRequestContext = {
queryId: instanceId,
from: GqlTypes_1.SequenceReference.PdbInstance,
to: GqlTypes_1.SequenceReference.Uniprot,
externalTrackBuilder: (_a = buildConfig.additionalConfig) === null || _a === void 0 ? void 0 : _a.externalTrackBuilder
};
const alignmentResponse = yield this.alignmentCollector.collect(alignmentRequestContext, (_b = buildConfig.additionalConfig) === null || _b === void 0 ? void 0 : _b.alignmentFilter);
yield this.buildAlignmentTracks(alignmentRequestContext, alignmentResponse, {
sequenceTrackFactory: new SequenceTrackFactory_1.SequenceTrackFactory(this.getPolymerEntityInstanceTranslator(), new InstanceSequenceTrackTitleFactory_1.InstanceSequenceTrackTitleFactory(this.getPolymerEntityInstanceTranslator()))
});
const annotationsRequestContext = {
queryId: instanceId,
reference: GqlTypes_1.SequenceReference.PdbInstance,
annotationGenerator: (ann) => (new Promise((r) => (r((0, BuriedResidues_1.buriedResidues)(ann))))),
annotationFilter: (ann) => (new Promise((r) => (r((0, BuriedResidues_1.buriedResiduesFilter)(ann))))),
sources: source,
annotationProcessing: (_c = buildConfig.additionalConfig) === null || _c === void 0 ? void 0 : _c.annotationProcessing,
externalTrackBuilder: (_d = buildConfig.additionalConfig) === null || _d === void 0 ? void 0 : _d.externalTrackBuilder
};
const annotationsFeatures = yield this.annotationCollector.collect(annotationsRequestContext);
yield this.buildAnnotationsTrack(annotationsRequestContext, annotationsFeatures);
this.boardConfigData.length = yield this.alignmentCollector.getAlignmentLength();
this.boardConfigData.includeAxis = true;
return void 0;
});
}
concatAlignmentAndAnnotationTracks() {
var _a;
const buildConfig = this.buildConfig;
this.rowConfigData =
!((_a = buildConfig.additionalConfig) === null || _a === void 0 ? void 0 : _a.hideAlignments) ?
[this.referenceTrack].concat(this.alignmentTracks).concat(this.annotationTracks)
:
this.alignmentTracks.concat(this.annotationTracks);
}
}
exports.RcsbFvInstance = RcsbFvInstance;