@rcsb/rcsb-saguaro-app 6.0.13 → 6.1.0

package/lib/RcsbAnnotationConfig/RcsbAnnotationConfig.ac.json

@@ -88,6 +88,7 @@
     ],
     "instance_order": [
         "MA_QA_METRIC_LOCAL_TYPE_PLDDT",
+        "UNMODELED",
         "SECONDARY_STRUCTURE",
         "UNOBSERVED",
         "ZERO_OCCUPANCY_RESIDUE_XYZ",
@@ -122,6 +123,14 @@
         "DISORDER_BINDING"
     ],
     "config": [{
+            "type": "UNMODELED",
+            "display": "block-area",
+            "color": {
+                "colors": ["#BBB", "#999"],
+                "thresholds": [0.999]
+            },
+            "title": "UNMODELED"
+        }, {
             "type": "TRANSIT_PEPTIDE",
             "color": "#189f3e",
             "display": "block",

package/lib/RcsbFvExamples/EntitySummaryFv.js

@@ -1,4 +1,8 @@
 import { buildEntitySummaryFv } from "../RcsbFvWeb/RcsbFvBuilder";
-buildEntitySummaryFv("pfv", "select", "AF_AFQ8WZ42F1_1").then((module) => {
-    console.log(module);
+import { getJsonFromUrl, onLoad } from "./utils/events";
+onLoad(() => {
+    const args = getJsonFromUrl().entityId ? getJsonFromUrl() : { entityId: "3HBX_1" };
+    buildEntitySummaryFv("pfv", "select", args.entityId).then((module) => {
+        console.log(module);
+    });
 });

package/lib/RcsbFvExamples/utils/events.d.ts

@@ -0,0 +1,2 @@
+export declare function getJsonFromUrl(): any;
+export declare function onLoad(f: () => void): void;

package/lib/RcsbFvExamples/utils/events.js

@@ -0,0 +1,15 @@
+export function getJsonFromUrl() {
+    const url = location.search;
+    var query = url.substring(1);
+    var result = {};
+    query.split("&").forEach(function (part) {
+        var item = part.split("=");
+        result[item[0]] = decodeURIComponent(item[1]);
+    });
+    return result;
+}
+export function onLoad(f) {
+    document.addEventListener("DOMContentLoaded", function (event) {
+        f();
+    });
+}

package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvEntity.d.ts

@@ -1,6 +1,9 @@
 import { RcsbFvAbstractModule } from "./RcsbFvAbstractModule";
+import { RcsbFvBoardConfigInterface } from "@rcsb/rcsb-saguaro/lib/RcsbFv/RcsbFvConfig/RcsbFvConfigInterface";
 export declare class RcsbFvEntity extends RcsbFvAbstractModule {
+    private readonly unmodeledTrackBuilder;
     protected protectedBuild(): Promise<void>;
+    protected getBoardConfig(): Promise<RcsbFvBoardConfigInterface>;
     protected concatAlignmentAndAnnotationTracks(): void;
     private titleSuffix;
 }

package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvEntity.js

@@ -4,7 +4,12 @@ import { RcsbFvAbstractModule } from "./RcsbFvAbstractModule";
 import { Assertions } from "../../RcsbUtils/Helpers/Assertions";
 var assertDefined = Assertions.assertDefined;
 import { TagDelimiter } from "@rcsb/rcsb-api-tools/build/RcsbUtils/TagDelimiter";
+import { addUnmodeledTrackBuilder, UnmodeledTrackBuilder } from "../../RcsbUtils/TrackGenerators/UnmodeledTrackBuilder";
 export class RcsbFvEntity extends RcsbFvAbstractModule {
+    constructor() {
+        super(...arguments);
+        this.unmodeledTrackBuilder = new UnmodeledTrackBuilder();
+    }
     protectedBuild() {
         var _a, _b, _c, _d, _e, _f, _g;
         return __awaiter(this, void 0, void 0, function* () {
@@ -25,7 +30,10 @@ export class RcsbFvEntity extends RcsbFvAbstractModule {
                 titleSuffix: this.titleSuffix.bind(this),
                 filters: (_e = buildConfig.additionalConfig) === null || _e === void 0 ? void 0 : _e.filters,
                 annotationProcessing: (_f = buildConfig.additionalConfig) === null || _f === void 0 ? void 0 : _f.annotationProcessing,
-                externalTrackBuilder: (_g = buildConfig.additionalConfig) === null || _g === void 0 ? void 0 : _g.externalTrackBuilder
+                rcsbContext: {
+                    entityId: buildConfig.entityId
+                },
+                externalTrackBuilder: addUnmodeledTrackBuilder(this.unmodeledTrackBuilder, (_g = buildConfig.additionalConfig) === null || _g === void 0 ? void 0 : _g.externalTrackBuilder)
             };
             const annotationsFeatures = yield this.annotationCollector.collect(annotationsRequestContext);
             yield this.buildAnnotationsTrack(annotationsRequestContext, annotationsFeatures);
@@ -34,6 +42,11 @@ export class RcsbFvEntity extends RcsbFvAbstractModule {
             return void 0;
         });
     }
+    getBoardConfig() {
+        return __awaiter(this, void 0, void 0, function* () {
+            return Object.assign(Object.assign({}, this.boardConfigData), { tooltipGenerator: this.unmodeledTrackBuilder.getTooltip() });
+        });
+    }
     concatAlignmentAndAnnotationTracks() {
         var _a;
         const buildConfig = this.buildConfig;

package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvUniprotEntity.d.ts

@@ -1,6 +1,9 @@
 import { RcsbFvAbstractModule } from "./RcsbFvAbstractModule";
+import { RcsbFvBoardConfigInterface } from "@rcsb/rcsb-saguaro/lib/RcsbFv/RcsbFvConfig/RcsbFvConfigInterface";
 export declare class RcsbFvUniprotEntity extends RcsbFvAbstractModule {
+    private readonly unmodeledTrackBuilder;
     protected protectedBuild(): Promise<void>;
+    protected getBoardConfig(): Promise<RcsbFvBoardConfigInterface>;
     protected concatAlignmentAndAnnotationTracks(): void;
     private titleSuffix;
 }

package/lib/RcsbFvWeb/RcsbFvModule/RcsbFvUniprotEntity.js

@@ -4,7 +4,12 @@ import { RcsbFvAbstractModule } from "./RcsbFvAbstractModule";
 import { Assertions } from "../../RcsbUtils/Helpers/Assertions";
 var assertDefined = Assertions.assertDefined;
 import { TagDelimiter } from "@rcsb/rcsb-api-tools/build/RcsbUtils/TagDelimiter";
+import { addUnmodeledTrackBuilder, UnmodeledTrackBuilder } from "../../RcsbUtils/TrackGenerators/UnmodeledTrackBuilder";
 export class RcsbFvUniprotEntity extends RcsbFvAbstractModule {
+    constructor() {
+        super(...arguments);
+        this.unmodeledTrackBuilder = new UnmodeledTrackBuilder();
+    }
     protectedBuild() {
         var _a, _b, _c;
         return __awaiter(this, void 0, void 0, function* () {
@@ -36,7 +41,10 @@ export class RcsbFvUniprotEntity extends RcsbFvAbstractModule {
                 filters: (additionalConfig === null || additionalConfig === void 0 ? void 0 : additionalConfig.filters) instanceof Array ? additionalConfig.filters.concat(filters) : filters,
                 titleSuffix: this.titleSuffix.bind(this),
                 annotationProcessing: (_b = buildConfig.additionalConfig) === null || _b === void 0 ? void 0 : _b.annotationProcessing,
-                externalTrackBuilder: (_c = buildConfig.additionalConfig) === null || _c === void 0 ? void 0 : _c.externalTrackBuilder
+                rcsbContext: {
+                    entityId: buildConfig.entityId
+                },
+                externalTrackBuilder: addUnmodeledTrackBuilder(this.unmodeledTrackBuilder, (_c = buildConfig.additionalConfig) === null || _c === void 0 ? void 0 : _c.externalTrackBuilder)
             };
             const annotationsFeatures = yield this.annotationCollector.collect(annotationsRequestContext);
             yield this.buildAnnotationsTrack(annotationsRequestContext, annotationsFeatures);
@@ -45,6 +53,11 @@ export class RcsbFvUniprotEntity extends RcsbFvAbstractModule {
             return void 0;
         });
     }
+    getBoardConfig() {
+        return __awaiter(this, void 0, void 0, function* () {
+            return Object.assign(Object.assign({}, this.boardConfigData), { tooltipGenerator: this.unmodeledTrackBuilder.getTooltip() });
+        });
+    }
     concatAlignmentAndAnnotationTracks() {
         this.rowConfigData = [this.referenceTrack].concat(this.alignmentTracks).concat(this.annotationTracks);
     }

package/lib/RcsbUtils/TrackGenerators/UnmodeledTrackBuilder.d.ts

@@ -0,0 +1,14 @@
+import { AnnotationFeatures } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
+import { PolymerEntityInstanceInterface } from "../../RcsbCollectTools/DataCollectors/PolymerEntityInstancesCollector";
+import { RcsbFvTooltipInterface } from "@rcsb/rcsb-saguaro/lib/RcsbFv/RcsbFvTooltip/RcsbFvTooltipInterface";
+import { ExternalTrackBuilderInterface } from "../../RcsbCollectTools/FeatureTools/ExternalTrackBuilderInterface";
+export declare function addUnmodeledTrackBuilder(unmodeledTrackBuilder: UnmodeledTrackBuilder, externalTrackBuilder?: ExternalTrackBuilderInterface): ExternalTrackBuilderInterface;
+export declare class UnmodeledTrackBuilder {
+    private readonly unmodeledDescription;
+    filterFeatures(data: {
+        annotations: Array<AnnotationFeatures>;
+        rcsbContext?: Partial<PolymerEntityInstanceInterface>;
+    }): Promise<Array<AnnotationFeatures>>;
+    getTooltip(): RcsbFvTooltipInterface;
+    private buildUnobserved;
+}

package/lib/RcsbUtils/TrackGenerators/UnmodeledTrackBuilder.js

@@ -0,0 +1,100 @@
+import { __awaiter } from "tslib";
+import { Source, Type } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
+import { range } from "lodash";
+import { rcsbRequestCtxManager } from "../../RcsbRequest/RcsbRequestContextManager";
+import { RcsbFvTooltip } from "../../RcsbFvWeb/RcsbFvTooltip/RcsbFvTooltip";
+export function addUnmodeledTrackBuilder(unmodeledTrackBuilder, externalTrackBuilder) {
+    const trackBuilder = (data) => __awaiter(this, void 0, void 0, function* () {
+        var _a, _b;
+        return [
+            ...(_b = yield ((_a = externalTrackBuilder === null || externalTrackBuilder === void 0 ? void 0 : externalTrackBuilder.filterFeatures) === null || _a === void 0 ? void 0 : _a.call(externalTrackBuilder, data))) !== null && _b !== void 0 ? _b : [],
+            ...yield unmodeledTrackBuilder.filterFeatures(data)
+        ];
+    });
+    return Object.assign(Object.assign({}, externalTrackBuilder), { filterFeatures: (data) => __awaiter(this, void 0, void 0, function* () {
+            var _c, _d, _e;
+            (_c = externalTrackBuilder === null || externalTrackBuilder === void 0 ? void 0 : externalTrackBuilder.filterFeatures) === null || _c === void 0 ? void 0 : _c.call(externalTrackBuilder, data);
+            return trackBuilder({
+                annotations: (_e = yield ((_d = externalTrackBuilder === null || externalTrackBuilder === void 0 ? void 0 : externalTrackBuilder.filterFeatures) === null || _d === void 0 ? void 0 : _d.call(externalTrackBuilder, data))) !== null && _e !== void 0 ? _e : data.annotations,
+                rcsbContext: data.rcsbContext
+            });
+        }) });
+}
+export class UnmodeledTrackBuilder {
+    constructor() {
+        this.unmodeledDescription = new Map();
+    }
+    filterFeatures(data) {
+        return __awaiter(this, void 0, void 0, function* () {
+            if (!data.rcsbContext)
+                return data.annotations;
+            return [
+                ...yield this.buildUnobserved(data.annotations, data.rcsbContext),
+                ...filterUnobserved(data.annotations)
+            ];
+        });
+    }
+    getTooltip() {
+        return new UnobservedToolTip(this.unmodeledDescription);
+    }
+    buildUnobserved(annotations, rcsbContext) {
+        var _a;
+        return __awaiter(this, void 0, void 0, function* () {
+            const nInstances = (yield rcsbRequestCtxManager.getEntityProperties((_a = rcsbContext.entityId) !== null && _a !== void 0 ? _a : "none"))[0].instances.length;
+            const featurePositions = Array.from(annotations.filter(ann => {
+                var _a, _b, _c;
+                return (_c = (_b = (_a = ann.features) === null || _a === void 0 ? void 0 : _a.filter(f => (f === null || f === void 0 ? void 0 : f.type) == Type.UnobservedResidueXyz)) === null || _b === void 0 ? void 0 : _b.length) !== null && _c !== void 0 ? _c : 0 > 0;
+            }).map(ann => {
+                var _a, _b;
+                return (_b = (_a = ann.features) === null || _a === void 0 ? void 0 : _a.filter((f) => (f === null || f === void 0 ? void 0 : f.type) == Type.UnobservedResidueXyz)) !== null && _b !== void 0 ? _b : [];
+            }).flat().map(feature => {
+                var _a, _b;
+                return (_b = (_a = feature.feature_positions) === null || _a === void 0 ? void 0 : _a.filter((p) => typeof p != "undefined")) !== null && _b !== void 0 ? _b : [];
+            }).flat().map(p => p.beg_seq_id && p.end_seq_id ? range(p.beg_seq_id, p.end_seq_id + 1) : []).flat().reduce((map, idx) => { var _a; return map.set(idx, ((_a = map.get(idx)) !== null && _a !== void 0 ? _a : 0) + 1); }, new Map).entries()).map(([idx, unobserved]) => {
+                this.unmodeledDescription.set(`${rcsbContext.entityId}:${idx}`, [unobserved, nInstances]);
+                return {
+                    beg_seq_id: idx,
+                    values: [Math.round(unobserved / nInstances * 100) / 100]
+                };
+            });
+            return [{
+                    source: Source.PdbEntity,
+                    target_id: rcsbContext.entityId,
+                    features: [{
+                            type: UNMODELED,
+                            feature_positions: featurePositions
+                        }]
+                }];
+        });
+    }
+}
+class UnobservedToolTip {
+    constructor(trackDescription) {
+        this.regularTooltip = new RcsbFvTooltip();
+        this.trackDescription = trackDescription;
+    }
+    showTooltip(d) {
+        return this.regularTooltip.showTooltip(d);
+    }
+    showTooltipDescription(d) {
+        if (d.title == UNMODELED)
+            return this.overloadTooltipDescription(d);
+        return this.regularTooltip.showTooltipDescription(d);
+    }
+    overloadTooltipDescription(d) {
+        var _a;
+        if (!this.trackDescription.has(`${d.sourceId}:${d.begin}`))
+            return undefined;
+        const tooltipDescriptionDiv = document.createElement("div");
+        const [unobserved, total] = (_a = this.trackDescription.get(`${d.sourceId}:${d.begin}`)) !== null && _a !== void 0 ? _a : [0, 0];
+        tooltipDescriptionDiv.append(`Unmodeled in ${unobserved} of ${total} chains`);
+        return tooltipDescriptionDiv;
+    }
+}
+function filterUnobserved(annotations) {
+    return annotations.map(ann => {
+        var _a;
+        return Object.assign(Object.assign({}, ann), { features: (_a = ann.features) === null || _a === void 0 ? void 0 : _a.filter(f => (f === null || f === void 0 ? void 0 : f.type) != Type.UnobservedResidueXyz && (f === null || f === void 0 ? void 0 : f.type) != Type.UnobservedAtomXyz) });
+    });
+}
+const UNMODELED = "UNMODELED";

package/lib/commonjs/RcsbAnnotationConfig/RcsbAnnotationConfig.ac.json

@@ -88,6 +88,7 @@
     ],
     "instance_order": [
         "MA_QA_METRIC_LOCAL_TYPE_PLDDT",
+        "UNMODELED",
         "SECONDARY_STRUCTURE",
         "UNOBSERVED",
         "ZERO_OCCUPANCY_RESIDUE_XYZ",
@@ -122,6 +123,14 @@
         "DISORDER_BINDING"
     ],
     "config": [{
+            "type": "UNMODELED",
+            "display": "block-area",
+            "color": {
+                "colors": ["#BBB", "#999"],
+                "thresholds": [0.999]
+            },
+            "title": "UNMODELED"
+        }, {
             "type": "TRANSIT_PEPTIDE",
             "color": "#189f3e",
             "display": "block",

package/lib/commonjs/RcsbFvExamples/EntitySummaryFv.js

@@ -1,6 +1,10 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
 const RcsbFvBuilder_1 = require("../RcsbFvWeb/RcsbFvBuilder");
-(0, RcsbFvBuilder_1.buildEntitySummaryFv)("pfv", "select", "AF_AFQ8WZ42F1_1").then((module) => {
-    console.log(module);
+const events_1 = require("./utils/events");
+(0, events_1.onLoad)(() => {
+    const args = (0, events_1.getJsonFromUrl)().entityId ? (0, events_1.getJsonFromUrl)() : { entityId: "3HBX_1" };
+    (0, RcsbFvBuilder_1.buildEntitySummaryFv)("pfv", "select", args.entityId).then((module) => {
+        console.log(module);
+    });
 });

package/lib/commonjs/RcsbFvExamples/utils/events.d.ts

@@ -0,0 +1,2 @@
+export declare function getJsonFromUrl(): any;
+export declare function onLoad(f: () => void): void;

package/lib/commonjs/RcsbFvExamples/utils/events.js

@@ -0,0 +1,20 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.onLoad = exports.getJsonFromUrl = void 0;
+function getJsonFromUrl() {
+    const url = location.search;
+    var query = url.substring(1);
+    var result = {};
+    query.split("&").forEach(function (part) {
+        var item = part.split("=");
+        result[item[0]] = decodeURIComponent(item[1]);
+    });
+    return result;
+}
+exports.getJsonFromUrl = getJsonFromUrl;
+function onLoad(f) {
+    document.addEventListener("DOMContentLoaded", function (event) {
+        f();
+    });
+}
+exports.onLoad = onLoad;

package/lib/commonjs/RcsbFvWeb/RcsbFvModule/RcsbFvEntity.d.ts

@@ -1,6 +1,9 @@
 import { RcsbFvAbstractModule } from "./RcsbFvAbstractModule";
+import { RcsbFvBoardConfigInterface } from "@rcsb/rcsb-saguaro/lib/RcsbFv/RcsbFvConfig/RcsbFvConfigInterface";
 export declare class RcsbFvEntity extends RcsbFvAbstractModule {
+    private readonly unmodeledTrackBuilder;
     protected protectedBuild(): Promise<void>;
+    protected getBoardConfig(): Promise<RcsbFvBoardConfigInterface>;
     protected concatAlignmentAndAnnotationTracks(): void;
     private titleSuffix;
 }

package/lib/commonjs/RcsbFvWeb/RcsbFvModule/RcsbFvEntity.js

@@ -7,7 +7,12 @@ const RcsbFvAbstractModule_1 = require("./RcsbFvAbstractModule");
 const Assertions_1 = require("../../RcsbUtils/Helpers/Assertions");
 var assertDefined = Assertions_1.Assertions.assertDefined;
 const TagDelimiter_1 = require("@rcsb/rcsb-api-tools/build/RcsbUtils/TagDelimiter");
+const UnmodeledTrackBuilder_1 = require("../../RcsbUtils/TrackGenerators/UnmodeledTrackBuilder");
 class RcsbFvEntity extends RcsbFvAbstractModule_1.RcsbFvAbstractModule {
+    constructor() {
+        super(...arguments);
+        this.unmodeledTrackBuilder = new UnmodeledTrackBuilder_1.UnmodeledTrackBuilder();
+    }
     protectedBuild() {
         var _a, _b, _c, _d, _e, _f, _g;
         return tslib_1.__awaiter(this, void 0, void 0, function* () {
@@ -28,7 +33,10 @@ class RcsbFvEntity extends RcsbFvAbstractModule_1.RcsbFvAbstractModule {
                 titleSuffix: this.titleSuffix.bind(this),
                 filters: (_e = buildConfig.additionalConfig) === null || _e === void 0 ? void 0 : _e.filters,
                 annotationProcessing: (_f = buildConfig.additionalConfig) === null || _f === void 0 ? void 0 : _f.annotationProcessing,
-                externalTrackBuilder: (_g = buildConfig.additionalConfig) === null || _g === void 0 ? void 0 : _g.externalTrackBuilder
+                rcsbContext: {
+                    entityId: buildConfig.entityId
+                },
+                externalTrackBuilder: (0, UnmodeledTrackBuilder_1.addUnmodeledTrackBuilder)(this.unmodeledTrackBuilder, (_g = buildConfig.additionalConfig) === null || _g === void 0 ? void 0 : _g.externalTrackBuilder)
             };
             const annotationsFeatures = yield this.annotationCollector.collect(annotationsRequestContext);
             yield this.buildAnnotationsTrack(annotationsRequestContext, annotationsFeatures);
@@ -37,6 +45,11 @@ class RcsbFvEntity extends RcsbFvAbstractModule_1.RcsbFvAbstractModule {
             return void 0;
         });
     }
+    getBoardConfig() {
+        return tslib_1.__awaiter(this, void 0, void 0, function* () {
+            return Object.assign(Object.assign({}, this.boardConfigData), { tooltipGenerator: this.unmodeledTrackBuilder.getTooltip() });
+        });
+    }
     concatAlignmentAndAnnotationTracks() {
         var _a;
         const buildConfig = this.buildConfig;

package/lib/commonjs/RcsbFvWeb/RcsbFvModule/RcsbFvUniprotEntity.d.ts

@@ -1,6 +1,9 @@
 import { RcsbFvAbstractModule } from "./RcsbFvAbstractModule";
+import { RcsbFvBoardConfigInterface } from "@rcsb/rcsb-saguaro/lib/RcsbFv/RcsbFvConfig/RcsbFvConfigInterface";
 export declare class RcsbFvUniprotEntity extends RcsbFvAbstractModule {
+    private readonly unmodeledTrackBuilder;
     protected protectedBuild(): Promise<void>;
+    protected getBoardConfig(): Promise<RcsbFvBoardConfigInterface>;
     protected concatAlignmentAndAnnotationTracks(): void;
     private titleSuffix;
 }

package/lib/commonjs/RcsbFvWeb/RcsbFvModule/RcsbFvUniprotEntity.js

@@ -7,7 +7,12 @@ const RcsbFvAbstractModule_1 = require("./RcsbFvAbstractModule");
 const Assertions_1 = require("../../RcsbUtils/Helpers/Assertions");
 var assertDefined = Assertions_1.Assertions.assertDefined;
 const TagDelimiter_1 = require("@rcsb/rcsb-api-tools/build/RcsbUtils/TagDelimiter");
+const UnmodeledTrackBuilder_1 = require("../../RcsbUtils/TrackGenerators/UnmodeledTrackBuilder");
 class RcsbFvUniprotEntity extends RcsbFvAbstractModule_1.RcsbFvAbstractModule {
+    constructor() {
+        super(...arguments);
+        this.unmodeledTrackBuilder = new UnmodeledTrackBuilder_1.UnmodeledTrackBuilder();
+    }
     protectedBuild() {
         var _a, _b, _c;
         return tslib_1.__awaiter(this, void 0, void 0, function* () {
@@ -39,7 +44,10 @@ class RcsbFvUniprotEntity extends RcsbFvAbstractModule_1.RcsbFvAbstractModule {
                 filters: (additionalConfig === null || additionalConfig === void 0 ? void 0 : additionalConfig.filters) instanceof Array ? additionalConfig.filters.concat(filters) : filters,
                 titleSuffix: this.titleSuffix.bind(this),
                 annotationProcessing: (_b = buildConfig.additionalConfig) === null || _b === void 0 ? void 0 : _b.annotationProcessing,
-                externalTrackBuilder: (_c = buildConfig.additionalConfig) === null || _c === void 0 ? void 0 : _c.externalTrackBuilder
+                rcsbContext: {
+                    entityId: buildConfig.entityId
+                },
+                externalTrackBuilder: (0, UnmodeledTrackBuilder_1.addUnmodeledTrackBuilder)(this.unmodeledTrackBuilder, (_c = buildConfig.additionalConfig) === null || _c === void 0 ? void 0 : _c.externalTrackBuilder)
             };
             const annotationsFeatures = yield this.annotationCollector.collect(annotationsRequestContext);
             yield this.buildAnnotationsTrack(annotationsRequestContext, annotationsFeatures);
@@ -48,6 +56,11 @@ class RcsbFvUniprotEntity extends RcsbFvAbstractModule_1.RcsbFvAbstractModule {
             return void 0;
         });
     }
+    getBoardConfig() {
+        return tslib_1.__awaiter(this, void 0, void 0, function* () {
+            return Object.assign(Object.assign({}, this.boardConfigData), { tooltipGenerator: this.unmodeledTrackBuilder.getTooltip() });
+        });
+    }
     concatAlignmentAndAnnotationTracks() {
         this.rowConfigData = [this.referenceTrack].concat(this.alignmentTracks).concat(this.annotationTracks);
     }

package/lib/commonjs/RcsbUtils/TrackGenerators/UnmodeledTrackBuilder.d.ts

@@ -0,0 +1,14 @@
+import { AnnotationFeatures } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
+import { PolymerEntityInstanceInterface } from "../../RcsbCollectTools/DataCollectors/PolymerEntityInstancesCollector";
+import { RcsbFvTooltipInterface } from "@rcsb/rcsb-saguaro/lib/RcsbFv/RcsbFvTooltip/RcsbFvTooltipInterface";
+import { ExternalTrackBuilderInterface } from "../../RcsbCollectTools/FeatureTools/ExternalTrackBuilderInterface";
+export declare function addUnmodeledTrackBuilder(unmodeledTrackBuilder: UnmodeledTrackBuilder, externalTrackBuilder?: ExternalTrackBuilderInterface): ExternalTrackBuilderInterface;
+export declare class UnmodeledTrackBuilder {
+    private readonly unmodeledDescription;
+    filterFeatures(data: {
+        annotations: Array<AnnotationFeatures>;
+        rcsbContext?: Partial<PolymerEntityInstanceInterface>;
+    }): Promise<Array<AnnotationFeatures>>;
+    getTooltip(): RcsbFvTooltipInterface;
+    private buildUnobserved;
+}

package/lib/commonjs/RcsbUtils/TrackGenerators/UnmodeledTrackBuilder.js

@@ -0,0 +1,105 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.UnmodeledTrackBuilder = exports.addUnmodeledTrackBuilder = void 0;
+const tslib_1 = require("tslib");
+const GqlTypes_1 = require("@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes");
+const lodash_1 = require("lodash");
+const RcsbRequestContextManager_1 = require("../../RcsbRequest/RcsbRequestContextManager");
+const RcsbFvTooltip_1 = require("../../RcsbFvWeb/RcsbFvTooltip/RcsbFvTooltip");
+function addUnmodeledTrackBuilder(unmodeledTrackBuilder, externalTrackBuilder) {
+    const trackBuilder = (data) => tslib_1.__awaiter(this, void 0, void 0, function* () {
+        var _a, _b;
+        return [
+            ...(_b = yield ((_a = externalTrackBuilder === null || externalTrackBuilder === void 0 ? void 0 : externalTrackBuilder.filterFeatures) === null || _a === void 0 ? void 0 : _a.call(externalTrackBuilder, data))) !== null && _b !== void 0 ? _b : [],
+            ...yield unmodeledTrackBuilder.filterFeatures(data)
+        ];
+    });
+    return Object.assign(Object.assign({}, externalTrackBuilder), { filterFeatures: (data) => tslib_1.__awaiter(this, void 0, void 0, function* () {
+            var _c, _d, _e;
+            (_c = externalTrackBuilder === null || externalTrackBuilder === void 0 ? void 0 : externalTrackBuilder.filterFeatures) === null || _c === void 0 ? void 0 : _c.call(externalTrackBuilder, data);
+            return trackBuilder({
+                annotations: (_e = yield ((_d = externalTrackBuilder === null || externalTrackBuilder === void 0 ? void 0 : externalTrackBuilder.filterFeatures) === null || _d === void 0 ? void 0 : _d.call(externalTrackBuilder, data))) !== null && _e !== void 0 ? _e : data.annotations,
+                rcsbContext: data.rcsbContext
+            });
+        }) });
+}
+exports.addUnmodeledTrackBuilder = addUnmodeledTrackBuilder;
+class UnmodeledTrackBuilder {
+    constructor() {
+        this.unmodeledDescription = new Map();
+    }
+    filterFeatures(data) {
+        return tslib_1.__awaiter(this, void 0, void 0, function* () {
+            if (!data.rcsbContext)
+                return data.annotations;
+            return [
+                ...yield this.buildUnobserved(data.annotations, data.rcsbContext),
+                ...filterUnobserved(data.annotations)
+            ];
+        });
+    }
+    getTooltip() {
+        return new UnobservedToolTip(this.unmodeledDescription);
+    }
+    buildUnobserved(annotations, rcsbContext) {
+        var _a;
+        return tslib_1.__awaiter(this, void 0, void 0, function* () {
+            const nInstances = (yield RcsbRequestContextManager_1.rcsbRequestCtxManager.getEntityProperties((_a = rcsbContext.entityId) !== null && _a !== void 0 ? _a : "none"))[0].instances.length;
+            const featurePositions = Array.from(annotations.filter(ann => {
+                var _a, _b, _c;
+                return (_c = (_b = (_a = ann.features) === null || _a === void 0 ? void 0 : _a.filter(f => (f === null || f === void 0 ? void 0 : f.type) == GqlTypes_1.Type.UnobservedResidueXyz)) === null || _b === void 0 ? void 0 : _b.length) !== null && _c !== void 0 ? _c : 0 > 0;
+            }).map(ann => {
+                var _a, _b;
+                return (_b = (_a = ann.features) === null || _a === void 0 ? void 0 : _a.filter((f) => (f === null || f === void 0 ? void 0 : f.type) == GqlTypes_1.Type.UnobservedResidueXyz)) !== null && _b !== void 0 ? _b : [];
+            }).flat().map(feature => {
+                var _a, _b;
+                return (_b = (_a = feature.feature_positions) === null || _a === void 0 ? void 0 : _a.filter((p) => typeof p != "undefined")) !== null && _b !== void 0 ? _b : [];
+            }).flat().map(p => p.beg_seq_id && p.end_seq_id ? (0, lodash_1.range)(p.beg_seq_id, p.end_seq_id + 1) : []).flat().reduce((map, idx) => { var _a; return map.set(idx, ((_a = map.get(idx)) !== null && _a !== void 0 ? _a : 0) + 1); }, new Map).entries()).map(([idx, unobserved]) => {
+                this.unmodeledDescription.set(`${rcsbContext.entityId}:${idx}`, [unobserved, nInstances]);
+                return {
+                    beg_seq_id: idx,
+                    values: [Math.round(unobserved / nInstances * 100) / 100]
+                };
+            });
+            return [{
+                    source: GqlTypes_1.Source.PdbEntity,
+                    target_id: rcsbContext.entityId,
+                    features: [{
+                            type: UNMODELED,
+                            feature_positions: featurePositions
+                        }]
+                }];
+        });
+    }
+}
+exports.UnmodeledTrackBuilder = UnmodeledTrackBuilder;
+class UnobservedToolTip {
+    constructor(trackDescription) {
+        this.regularTooltip = new RcsbFvTooltip_1.RcsbFvTooltip();
+        this.trackDescription = trackDescription;
+    }
+    showTooltip(d) {
+        return this.regularTooltip.showTooltip(d);
+    }
+    showTooltipDescription(d) {
+        if (d.title == UNMODELED)
+            return this.overloadTooltipDescription(d);
+        return this.regularTooltip.showTooltipDescription(d);
+    }
+    overloadTooltipDescription(d) {
+        var _a;
+        if (!this.trackDescription.has(`${d.sourceId}:${d.begin}`))
+            return undefined;
+        const tooltipDescriptionDiv = document.createElement("div");
+        const [unobserved, total] = (_a = this.trackDescription.get(`${d.sourceId}:${d.begin}`)) !== null && _a !== void 0 ? _a : [0, 0];
+        tooltipDescriptionDiv.append(`Unmodeled in ${unobserved} of ${total} chains`);
+        return tooltipDescriptionDiv;
+    }
+}
+function filterUnobserved(annotations) {
+    return annotations.map(ann => {
+        var _a;
+        return Object.assign(Object.assign({}, ann), { features: (_a = ann.features) === null || _a === void 0 ? void 0 : _a.filter(f => (f === null || f === void 0 ? void 0 : f.type) != GqlTypes_1.Type.UnobservedResidueXyz && (f === null || f === void 0 ? void 0 : f.type) != GqlTypes_1.Type.UnobservedAtomXyz) });
+    });
+}
+const UNMODELED = "UNMODELED";

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@rcsb/rcsb-saguaro-app",
-  "version": "6.0.13",
+  "version": "6.1.0",
   "description": "RCSB 1D Saguaro Web App",
   "main": "build/app.js",
   "files": [
@@ -92,7 +92,7 @@
     "worker-loader": "^3.0.8"
   },
   "dependencies": {
-    "@rcsb/rcsb-charts": "^0.2.22",
+    "@rcsb/rcsb-charts": "^0.2.23",
     "@rcsb/rcsb-saguaro": "^3.0.8",
     "@rcsb/rcsb-search-tools": "^0.0.8",
     "ideogram": "^1.45.1",