@rcsb/rcsb-saguaro-app/lib/RcsbCollectTools/AlignmentCollector/AlignmentCollector.js

RCSB 1D Saguaro Web App

import { __awaiter } from "tslib";
import { rcsbClient } from "../../RcsbGraphQL/RcsbClient";
import { Subject } from "rxjs";
import { ObservableHelper } from "../../RcsbUtils/Helpers/ObservableHelper";
import { Assertions } from "../../RcsbUtils/Helpers/Assertions";
var assertElementListDefined = Assertions.assertElementListDefined;
export class AlignmentCollector {
    constructor() {
        this.requestStatus = "complete";
        this.rcsbFvQuery = rcsbClient;
        this.targetsSubject = new Subject();
        this.alignmentResponseSubject = new Subject();
        this.alignmentLengthSubject = new Subject();
    }
    collect(requestConfig, filter) {
        return __awaiter(this, void 0, void 0, function* () {
            var _a, _b;
            this.requestStatus = "pending";
            this.alignmentResponse = yield this.requestAlignment(requestConfig);
            const targetAlignment = (_a = this.alignmentResponse) === null || _a === void 0 ? void 0 : _a.target_alignments;
            if (targetAlignment) {
                assertElementListDefined(targetAlignment);
                this.alignmentResponse.target_alignments = !filter ? targetAlignment : targetAlignment === null || targetAlignment === void 0 ? void 0 : targetAlignment.filter(ta => { var _a; return filter.includes((_a = ta === null || ta === void 0 ? void 0 : ta.target_id) !== null && _a !== void 0 ? _a : "not-included"); });
            }
            this.alignmentResponse = typeof ((_b = requestConfig.externalTrackBuilder) === null || _b === void 0 ? void 0 : _b.filterAlignments) === "function" ? yield requestConfig.externalTrackBuilder.filterAlignments({ alignments: this.alignmentResponse }) : this.alignmentResponse;
            this.complete();
            return this.alignmentResponse;
        });
    }
    getTargets() {
        return __awaiter(this, void 0, void 0, function* () {
            return new Promise((resolve, reject) => {
                var _a, _b;
                if (this.requestStatus === "complete") {
                    const targetIds = (_b = (_a = this.alignmentResponse) === null || _a === void 0 ? void 0 : _a.target_alignments) === null || _b === void 0 ? void 0 : _b.map(ta => ta === null || ta === void 0 ? void 0 : ta.target_id);
                    assertElementListDefined(targetIds);
                    resolve(targetIds);
                }
                else {
                    ObservableHelper.oneTimeSubscription(resolve, this.targetsSubject);
                }
            });
        });
    }
    getAlignment() {
        return __awaiter(this, void 0, void 0, function* () {
            return new Promise((resolve, reject) => {
                if (this.requestStatus === "complete") {
                    resolve(this.alignmentResponse);
                }
                else {
                    ObservableHelper.oneTimeSubscription(resolve, this.alignmentResponseSubject);
                }
            });
        });
    }
    getAlignmentLength() {
        return new Promise((resolve, reject) => {
            var _a, _b, _c;
            if (this.requestStatus === "complete") {
                resolve((_c = ((_b = (_a = this.alignmentResponse.query_sequence) === null || _a === void 0 ? void 0 : _a.length) !== null && _b !== void 0 ? _b : this.alignmentResponse.alignment_length)) !== null && _c !== void 0 ? _c : -1);
            }
            else {
                ObservableHelper.oneTimeSubscription(resolve, this.alignmentLengthSubject);
            }
        });
    }
    requestAlignment(requestConfig) {
        return __awaiter(this, void 0, void 0, function* () {
            this.requestStatus = "pending";
            if (requestConfig.queryId && requestConfig.from && requestConfig.to) {
                return yield this.rcsbFvQuery.requestAlignment({
                    queryId: requestConfig.queryId,
                    from: requestConfig.from,
                    to: requestConfig.to
                });
            }
            else {
                if (requestConfig.group && requestConfig.groupId && requestConfig.page) {
                    return yield this.rcsbFvQuery.requestGroupAlignment({
                        group: requestConfig.group,
                        groupId: requestConfig.groupId,
                        page: requestConfig.page,
                        excludeLogo: requestConfig.excludeLogo,
                        filter: requestConfig.filter
                    });
                }
                else {
                    return {};
                }
            }
        });
    }
    complete() {
        var _a, _b, _c, _d, _e;
        this.requestStatus = "complete";
        const targetIds = (_b = (_a = this.alignmentResponse.target_alignments) === null || _a === void 0 ? void 0 : _a.map(ta => ta === null || ta === void 0 ? void 0 : ta.target_id)) !== null && _b !== void 0 ? _b : [];
        assertElementListDefined(targetIds);
        this.targetsSubject.next(targetIds);
        this.alignmentResponseSubject.next(this.alignmentResponse);
        this.alignmentLengthSubject.next((_e = ((_d = (_c = this.alignmentResponse.query_sequence) === null || _c === void 0 ? void 0 : _c.length) !== null && _d !== void 0 ? _d : this.alignmentResponse.alignment_length)) !== null && _e !== void 0 ? _e : -1);
        console.info("Alignment Processing Complete");
    }
}
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