@rcsb/rcsb-saguaro-app 6.2.1 → 6.2.2

package/lib/commonjs/RcsbSeacrh/FacetTools.d.ts

@@ -21,32 +21,32 @@ export declare class FacetTools {
     static addChartDisplayConfig(chart: RcsbChartInterface, chartDisplayConfig: Partial<ChartDisplayConfigInterface>): {
         chartConfig: {
             chartDisplayConfig: Partial<ChartDisplayConfigInterface>;
-            mostPopulatedGroups?: number | undefined;
-            domainMinValue?: number | undefined;
-            domainMaxValue?: number | undefined;
-            domainEmptyBins?: boolean | undefined;
-            histogramBinIncrement?: number | undefined;
+            mostPopulatedGroups?: number;
+            domainMinValue?: number;
+            domainMaxValue?: number;
+            domainEmptyBins?: boolean;
+            histogramBinIncrement?: number;
             tickIncrement?: {
                 origin: number;
                 increment: number;
-            } | undefined;
+            };
             tickFormat?: {
-                domAxis?: ((x: string | number) => string) | undefined;
-                imgAxis?: ((x: string | number) => string) | undefined;
-            } | undefined;
-            axisLabel?: string | undefined;
-            barClickCallback?: import("@rcsb/rcsb-charts/lib/RcsbChartComponent/ChartConfigInterface").BarClickCallbackType | undefined;
-            sort?: ((b: import("@rcsb/rcsb-charts/lib/RcsbChartDataProvider/ChartDataProviderInterface").ChartDataColumnInterface<any>, a: import("@rcsb/rcsb-charts/lib/RcsbChartDataProvider/ChartDataProviderInterface").ChartDataColumnInterface<any>) => number) | undefined;
-            tooltipText?: ((a: import("@rcsb/rcsb-charts/lib/RcsbChartDataProvider/ChartDataProviderInterface").ChartDataValueInterface<any>) => string | string[] | undefined) | undefined;
+                domAxis?: (x: string | number) => string;
+                imgAxis?: (x: string | number) => string;
+            };
+            axisLabel?: string;
+            barClickCallback?: import("@rcsb/rcsb-charts/lib/RcsbChartComponent/ChartConfigInterface").BarClickCallbackType;
+            sort?: (b: import("@rcsb/rcsb-charts/lib/RcsbChartDataProvider/ChartDataProviderInterface").ChartDataColumnInterface, a: import("@rcsb/rcsb-charts/lib/RcsbChartDataProvider/ChartDataProviderInterface").ChartDataColumnInterface) => number;
+            tooltipText?: (a: import("@rcsb/rcsb-charts/lib/RcsbChartDataProvider/ChartDataProviderInterface").ChartDataValueInterface) => string | string[] | undefined;
         };
         data: ChartObjectInterface<any>[];
-        filters?: SearchFilter[] | undefined;
+        filters?: SearchFilter[];
         title?: string | undefined;
         attribute: RcsbSearchAttributeType;
         attributeName: string;
         chartType: import("@rcsb/rcsb-charts/lib/RcsbChartComponent/ChartConfigInterface").ChartType;
         facetConfig?: import("./FacetStore/FacetMemberInterface").FacetConfigInterface | undefined;
-        contentType: "string" | "number" | "date";
+        contentType: "date" | "number" | "string";
     };
     private static includeMissingFacets;
     private static getFacetChartTypeFromAttribute;

package/lib/commonjs/RcsbSeacrh/SearchRequestProperty.js

@@ -38,8 +38,8 @@ class SearchRequestProperty {
     }
     //TODO this should be part of `SearchQueryTools`
     requestMembers(query) {
-        var _a, _b, _c;
         return tslib_1.__awaiter(this, void 0, void 0, function* () {
+            var _a, _b, _c;
             return (_c = (_b = (_a = (yield this.getClient().request({
                 query: query.query,
                 request_options: {
@@ -52,8 +52,8 @@ class SearchRequestProperty {
     }
     //TODO this should be part of `SearchQueryTools`
     requestCount(query) {
-        var _a, _b;
         return tslib_1.__awaiter(this, void 0, void 0, function* () {
+            var _a, _b;
             return (_b = (_a = (yield this.getClient().request({
                 query: query.query,
                 request_options: {

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

@@ -1,6 +1,6 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.alignmentGlobalLigandBindingSite = void 0;
+exports.alignmentGlobalLigandBindingSite = alignmentGlobalLigandBindingSite;
 const tslib_1 = require("tslib");
 const RcsbAnnotationConstants_1 = require("../../RcsbAnnotationConfig/RcsbAnnotationConstants");
 const GroupExternalTrackBuilder_1 = require("./GroupExternalTrackBuilder");
@@ -13,8 +13,8 @@ function alignmentGlobalLigandBindingSite() {
     const groupTrackBuilder = (0, GroupExternalTrackBuilder_1.groupExternalTrackBuilder)();
     return {
         addTo(tracks) {
-            var _a;
             return tslib_1.__awaiter(this, void 0, void 0, function* () {
+                var _a;
                 if (Array.from(bindingSiteMap.values()).length > 0)
                     tracks.annotationTracks.unshift({
                         trackId: "annotationTrack_GLOBAL_BINDINGS",
@@ -33,15 +33,15 @@ function alignmentGlobalLigandBindingSite() {
             });
         },
         processAlignmentAndFeatures(data) {
-            var _a;
             return tslib_1.__awaiter(this, void 0, void 0, function* () {
+                var _a;
                 yield ((_a = groupTrackBuilder.processAlignmentAndFeatures) === null || _a === void 0 ? void 0 : _a.call(groupTrackBuilder, data));
                 processFeatures(data.annotations);
             });
         },
         filterFeatures(data) {
-            var _a, _b;
             return tslib_1.__awaiter(this, void 0, void 0, function* () {
+                var _a, _b;
                 const annotations = (_b = yield ((_a = groupTrackBuilder.filterFeatures) === null || _a === void 0 ? void 0 : _a.call(groupTrackBuilder, data))) !== null && _b !== void 0 ? _b : [];
                 annotations.forEach(ann => {
                     var _a;
@@ -100,4 +100,3 @@ function alignmentGlobalLigandBindingSite() {
         });
     }
 }
-exports.alignmentGlobalLigandBindingSite = alignmentGlobalLigandBindingSite;

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

@@ -1,6 +1,7 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.burialFractionFilter = exports.burialFraction = void 0;
+exports.burialFraction = burialFraction;
+exports.burialFractionFilter = burialFractionFilter;
 const GqlTypes_1 = require("@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes");
 const lodash_1 = require("lodash");
 const FeatureType_1 = require("../../RcsbExport/FeatureType");
@@ -56,7 +57,6 @@ function burialFraction(annotations) {
     });
     return burialFractionOut;
 }
-exports.burialFraction = burialFraction;
 function burialFractionFilter(annotations) {
     return (0, lodash_1.cloneDeep)(annotations).map(ann => {
         var _a;
@@ -64,4 +64,3 @@ function burialFractionFilter(annotations) {
         return ann;
     }).filter(ann => { var _a, _b; return (((_b = (_a = ann.features) === null || _a === void 0 ? void 0 : _a.length) !== null && _b !== void 0 ? _b : 0) > 0); });
 }
-exports.burialFractionFilter = burialFractionFilter;

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

@@ -1,6 +1,7 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.buriedResiduesFilter = exports.buriedResidues = void 0;
+exports.buriedResidues = buriedResidues;
+exports.buriedResiduesFilter = buriedResiduesFilter;
 const GqlTypes_1 = require("@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes");
 const lodash_1 = require("lodash");
 const FeatureType_1 = require("../../RcsbExport/FeatureType");
@@ -41,7 +42,6 @@ function buriedResidues(annotations) {
     }
     return nBuried > 0 && buriedResidues ? [buriedResidues] : [];
 }
-exports.buriedResidues = buriedResidues;
 function buriedResiduesFilter(annotations) {
     return (0, lodash_1.cloneDeep)(annotations).map(ann => {
         var _a;
@@ -49,4 +49,3 @@ function buriedResiduesFilter(annotations) {
         return ann;
     }).filter(ann => { var _a, _b; return (((_b = (_a = ann.features) === null || _a === void 0 ? void 0 : _a.length) !== null && _b !== void 0 ? _b : 0) > 0); });
 }
-exports.buriedResiduesFilter = buriedResiduesFilter;

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

@@ -1,6 +1,6 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.groupExternalTrackBuilder = void 0;
+exports.groupExternalTrackBuilder = groupExternalTrackBuilder;
 const Logo_1 = require("./Logo");
 const RcsbAnnotationConstants_1 = require("../../RcsbAnnotationConfig/RcsbAnnotationConstants");
 const Assertions_1 = require("../Helpers/Assertions");
@@ -97,4 +97,3 @@ function groupExternalTrackBuilder() {
             }];
     }
 }
-exports.groupExternalTrackBuilder = groupExternalTrackBuilder;

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

@@ -1,6 +1,7 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.UnmodeledTrackBuilder = exports.addUnmodeledTrackBuilder = void 0;
+exports.UnmodeledTrackBuilder = void 0;
+exports.addUnmodeledTrackBuilder = addUnmodeledTrackBuilder;
 const tslib_1 = require("tslib");
 const GqlTypes_1 = require("@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes");
 const lodash_1 = require("lodash");
@@ -15,15 +16,14 @@ function addUnmodeledTrackBuilder(unmodeledTrackBuilder, externalTrackBuilder) {
         ];
     });
     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);
+            var _a, _b, _c;
+            (_a = externalTrackBuilder === null || externalTrackBuilder === void 0 ? void 0 : externalTrackBuilder.filterFeatures) === null || _a === void 0 ? void 0 : _a.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,
+                annotations: (_c = yield ((_b = externalTrackBuilder === null || externalTrackBuilder === void 0 ? void 0 : externalTrackBuilder.filterFeatures) === null || _b === void 0 ? void 0 : _b.call(externalTrackBuilder, data))) !== null && _c !== void 0 ? _c : data.annotations,
                 rcsbContext: data.rcsbContext
             });
         }) });
 }
-exports.addUnmodeledTrackBuilder = addUnmodeledTrackBuilder;
 class UnmodeledTrackBuilder {
     constructor() {
         this.unmodeledDescription = new Map();
@@ -42,8 +42,8 @@ class UnmodeledTrackBuilder {
         return new UnobservedToolTip(this.unmodeledDescription);
     }
     buildUnobserved(annotations, rcsbContext) {
-        var _a;
         return tslib_1.__awaiter(this, void 0, void 0, function* () {
+            var _a;
             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;

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@rcsb/rcsb-saguaro-app",
-  "version": "6.2.1",
+  "version": "6.2.2",
   "description": "RCSB 1D Saguaro Web App",
   "main": "build/app.js",
   "files": [
@@ -14,7 +14,6 @@
     "buildApp": "npm run clean && npm run checkQueries && npm run buildOnlyApp",
     "buildAppDev": "npm run clean && npm run checkQueries && npm run buildDev",
     "build": "webpack --config ./webpack.config.js",
-    "buildDev": "webpack --config ./webpack.server.dev.config.js",
     "checkQueries": "ts-node src/RcsbQueries/QueryCheck.ts",
     "copyQueries": "npm run copyBorregoQueries && npm run copyYosemiteQueries",
     "copyBorregoQueries": "ncp src/RcsbQueries/Borrego lib/RcsbQueries/Borrego && ncp src/RcsbQueries/Borrego lib/commonjs/RcsbQueries/Borrego",
@@ -51,21 +50,21 @@
   },
   "license": "MIT",
   "devDependencies": {
-    "@babel/core": "^7.24.0",
-    "@babel/plugin-proposal-class-properties": "^7.17.12",
-    "@babel/preset-env": "^7.24.0",
+    "@babel/core": "^7.25.2",
+    "@babel/plugin-proposal-class-properties": "^7.18.6",
+    "@babel/preset-env": "^7.25.3",
     "@svgr/webpack": "^8.1.0",
-    "@types/lodash": "^4.14.202",
+    "@types/lodash": "^4.17.7",
     "@types/lodash.range": "^3.2.9",
     "@types/object-hash": "^3.0.6",
-    "@types/react": "^18.2.64",
-    "@types/react-dom": "^18.2.21",
+    "@types/react": "^18.3.4",
+    "@types/react-dom": "^18.3.0",
     "@types/uniqid": "^5.3.4",
     "babel-loader": "^9.1.3",
     "bootstrap": "^5.3.3",
     "buffer": "^6.0.3",
     "crypto-browserify": "^3.12.0",
-    "css-loader": "^6.10.0",
+    "css-loader": "^7.1.2",
     "del-cli": "^5.1.0",
     "graphql-request": "^6.1.0",
     "html-webpack-plugin": "^5.6.0",
@@ -75,37 +74,37 @@
     "path-browserify": "^1.0.1",
     "raw-loader": "^4.0.2",
     "react-draggable": "^4.4.6",
-    "sass": "^1.71.1",
-    "sass-loader": "^14.1.1",
+    "sass": "^1.77.8",
+    "sass-loader": "^16.0.1",
     "stream-browserify": "^3.0.0",
-    "style-loader": "^3.3.4",
+    "style-loader": "^4.0.0",
     "ts-loader": "^9.5.1",
     "ts-node": "^10.9.2",
-    "typedoc": "^0.25.11",
-    "typedoc-plugin-missing-exports": "^2.2.0",
-    "typedoc-theme-hierarchy": "^4.1.2",
-    "typescript": "^5.3.3",
+    "typedoc": "^0.26.6",
+    "typedoc-plugin-missing-exports": "^3.0.0",
+    "typedoc-theme-hierarchy": "^5.0.3",
+    "typescript": "^5.5.4",
     "uniqid": "^5.4.0",
-    "webpack": "^5.90.3",
+    "webpack": "^5.93.0",
     "webpack-cli": "^5.1.4",
-    "webpack-dev-server": "^5.0.2",
+    "webpack-dev-server": "^5.0.4",
     "worker-loader": "^3.0.8"
   },
   "dependencies": {
-    "@rcsb/rcsb-charts": "^0.2.23",
-    "@rcsb/rcsb-saguaro": "^3.0.8",
+    "@rcsb/rcsb-charts": "^0.2.24",
+    "@rcsb/rcsb-saguaro": "^3.0.9",
     "@rcsb/rcsb-search-tools": "^0.0.14",
-    "ideogram": "^1.45.1",
-    "react-bootstrap": "^2.10.1",
+    "ideogram": "^1.47.0",
+    "react-bootstrap": "^2.10.4",
     "react-select": "^5.8.0",
     "rxjs": "^7.8.1",
     "string-to-color": "^2.2.2"
   },
   "peerDependencies": {
-    "@rcsb/rcsb-api-tools": "^4.1.14",
-    "boxicons": "^2.1.0",
-    "react": "^18.1.0",
-    "react-dom": "^18.1.0"
+    "@rcsb/rcsb-api-tools": "^4.3.0",
+    "boxicons": "^2.1.4",
+    "react": "^18.3.1",
+    "react-dom": "^18.3.1"
   },
   "bugs": {
     "url": "https://github.com/rcsb/rcsb-saguaro-app/issues"