@rcsb/rcsb-saguaro-app 6.3.0 → 6.3.2-dev-js-seqcoord.13

package/lib/commonjs/RcsbRequest/RcsbRequestTools.js

@@ -20,18 +20,20 @@ var RcsbRequestTools;
             if (!Array.isArray(ids))
                 ids = [ids];
             const missing = ids.filter(id => !map.has(id));
-            const collectorPromise = collector.collect({ [collectorKey]: missing });
-            missing.forEach(id => {
-                map.set(id, new Promise((resolve, reject) => {
-                    collectorPromise.then(t => {
-                        const d = t.find(t => propertyKey(t) == id);
-                        if (d)
-                            resolve(d);
-                        else
-                            reject(`${id} not available`);
-                    });
-                }));
-            });
+            if (missing.length > 0) {
+                const collectorPromise = collector.collect({ [collectorKey]: missing });
+                missing.forEach(id => {
+                    map.set(id, new Promise((resolve, reject) => {
+                        collectorPromise.then(t => {
+                            const d = t.find(t => propertyKey(t) == id);
+                            if (d)
+                                resolve(d);
+                            else
+                                reject(`${id} not available`);
+                        });
+                    }));
+                });
+            }
             return Promise.all(ids.map(i => map.get(i)).filter((x) => typeof x !== undefined));
         });
     }

package/lib/commonjs/RcsbServerConfig/codegen.borrego.json

@@ -1,4 +1,4 @@
 {
-    "schema": "https://1d-coordinates.rcsb.org/graphql",
+    "schema": "https://sequence-coordinates.rcsb.org/graphql",
     "documents": "src/RcsbQueries/Borrego/Query*.graphql"
 }

package/lib/commonjs/RcsbUtils/Groups/GroupGapLessTransformer.d.ts

@@ -1,8 +1,8 @@
-import { AlignmentResponse, AnnotationFeatures } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
+import { SequenceAlignments, SequenceAnnotations } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
 export declare class GroupGapLessTransformer {
     private readonly gapLessReference;
     private refLength;
     private processAlignments;
-    gapLessAlignments(alignments: AlignmentResponse): void;
-    gapLessFeatures(annotations: Array<AnnotationFeatures>): void;
+    gapLessAlignments(alignments: SequenceAlignments): void;
+    gapLessFeatures(annotations: Array<SequenceAnnotations>): void;
 }

package/lib/commonjs/RcsbUtils/Groups/GroupGapLessTransformer.js

@@ -32,31 +32,20 @@ class GroupGapLessTransformer {
         this.refLength = newIndex - 1;
     }
     gapLessAlignments(alignments) {
-        var _a, _b, _c, _d;
+        var _a, _b;
         this.processAlignments(alignments);
         if (this.gapLessReference.length == 0)
             return;
-        if (alignments.target_alignment)
-            (_a = alignments.target_alignment) === null || _a === void 0 ? void 0 : _a.forEach(ta => {
-                var _a;
-                (_a = ta === null || ta === void 0 ? void 0 : ta.aligned_regions) === null || _a === void 0 ? void 0 : _a.forEach(region => {
-                    if (region === null || region === void 0 ? void 0 : region.query_begin)
-                        region.query_begin = this.gapLessReference[region.query_begin];
-                    if (region === null || region === void 0 ? void 0 : region.query_end)
-                        region.query_end = this.gapLessReference[region.query_end];
-                });
-            });
-        else
-            (_c = (_b = alignments.target_alignment_subset) === null || _b === void 0 ? void 0 : _b.edges) === null || _c === void 0 ? void 0 : _c.forEach(edge => {
-                var _a, _b;
-                (_b = (_a = edge === null || edge === void 0 ? void 0 : edge.node) === null || _a === void 0 ? void 0 : _a.aligned_regions) === null || _b === void 0 ? void 0 : _b.forEach(region => {
-                    if (region === null || region === void 0 ? void 0 : region.query_begin)
-                        region.query_begin = this.gapLessReference[region.query_begin];
-                    if (region === null || region === void 0 ? void 0 : region.query_end)
-                        region.query_end = this.gapLessReference[region.query_end];
-                });
+        (_a = alignments.target_alignments) === null || _a === void 0 ? void 0 : _a.forEach(ta => {
+            var _a;
+            (_a = ta === null || ta === void 0 ? void 0 : ta.aligned_regions) === null || _a === void 0 ? void 0 : _a.forEach(region => {
+                if (region === null || region === void 0 ? void 0 : region.query_begin)
+                    region.query_begin = this.gapLessReference[region.query_begin];
+                if (region === null || region === void 0 ? void 0 : region.query_end)
+                    region.query_end = this.gapLessReference[region.query_end];
             });
-        alignments.alignment_logo = (_d = alignments.alignment_logo) === null || _d === void 0 ? void 0 : _d.filter((al, n) => this.gapLessReference[n + 1] != -1);
+        });
+        alignments.alignment_logo = (_b = alignments.alignment_logo) === null || _b === void 0 ? void 0 : _b.filter((al, n) => this.gapLessReference[n + 1] != -1);
         if (alignments.alignment_length)
             alignments.alignment_length = this.refLength;
     }

package/lib/commonjs/RcsbUtils/PairwiseAlignmentTools/AlignmentReference.d.ts

@@ -1,4 +1,4 @@
-import { AlignmentResponse } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
+import { SequenceAlignments } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
 type AlignmentRefType = (number | undefined)[];
 export declare class AlignmentReference {
     private readonly alignmentRefMap;
@@ -7,7 +7,7 @@ export declare class AlignmentReference {
     private readonly memberRefList;
     constructor(refId: string, targetId: string, alignment: AlignmentRefType, target: AlignmentRefType);
     addAlignment(id: string, alignment: AlignmentRefType, target: AlignmentRefType): void;
-    buildAlignments(): AlignmentResponse;
+    buildAlignments(): SequenceAlignments;
     private addRef;
     private addEnd;
     private addBeg;

package/lib/commonjs/RcsbUtils/PairwiseAlignmentTools/AlignmentReference.js

@@ -96,14 +96,14 @@ class AlignmentReference {
 exports.AlignmentReference = AlignmentReference;
 function buildAlignments(refId, alignmentRefMap, alignmentMembers) {
     const out = {};
-    out.target_alignment = [];
-    out.target_alignment.push({
+    out.target_alignments = [];
+    out.target_alignments.push({
         aligned_regions: buildRegions(alignmentRefMap),
         target_id: refId
     });
     alignmentMembers.forEach(am => {
         var _a;
-        (_a = out.target_alignment) === null || _a === void 0 ? void 0 : _a.push({
+        (_a = out.target_alignments) === null || _a === void 0 ? void 0 : _a.push({
             target_id: am.id,
             aligned_regions: buildRegions(am.map.map((v, n) => typeof v === "number" ? am.target[v] : undefined))
         });

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

@@ -66,35 +66,33 @@ function alignmentGlobalLigandBindingSite() {
                 var _a;
                 if (d)
                     (_a = d.feature_positions) === null || _a === void 0 ? void 0 : _a.forEach(p => {
-                        var _a;
-                        if (p === null || p === void 0 ? void 0 : p.beg_seq_id)
-                            (_a = p.values) === null || _a === void 0 ? void 0 : _a.forEach((v, n) => {
-                                var _a, _b;
-                                const key = (p.beg_seq_id + n).toString();
-                                if (!ligandMap.has(key))
-                                    ligandMap.set(key, new Set());
-                                else if (d.name && !((_a = ligandMap.get(key)) === null || _a === void 0 ? void 0 : _a.has(d.name)))
-                                    (_b = ligandMap.get(key)) === null || _b === void 0 ? void 0 : _b.add(d.name);
-                                else
-                                    return;
-                                const bs = bindingSiteMap.get(key);
-                                if (!bs) {
-                                    bindingSiteMap.set(key, {
-                                        begin: p.beg_seq_id + n,
-                                        type: trackName,
-                                        value: 1
-                                    });
-                                    if (max == 0)
-                                        max = 1;
+                        var _a, _b;
+                        if (p === null || p === void 0 ? void 0 : p.beg_seq_id) {
+                            const key = (p.beg_seq_id).toString();
+                            if (!ligandMap.has(key))
+                                ligandMap.set(key, new Set());
+                            else if (d.name && !((_a = ligandMap.get(key)) === null || _a === void 0 ? void 0 : _a.has(d.name)))
+                                (_b = ligandMap.get(key)) === null || _b === void 0 ? void 0 : _b.add(d.name);
+                            else
+                                return;
+                            const bs = bindingSiteMap.get(key);
+                            if (!bs) {
+                                bindingSiteMap.set(key, {
+                                    begin: p.beg_seq_id,
+                                    type: trackName,
+                                    value: 1
+                                });
+                                if (max == 0)
+                                    max = 1;
+                            }
+                            else {
+                                if (bs) {
+                                    bs.value += 1;
+                                    if (bs.value > max)
+                                        max = bs.value;
                                 }
-                                else {
-                                    if (bs) {
-                                        bs.value += 1;
-                                        if (bs.value > max)
-                                            max = bs.value;
-                                    }
-                                }
-                            });
+                            }
+                        }
                     });
             });
         });

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

@@ -1,3 +1,3 @@
-import { AnnotationFeatures } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
-export declare function burialFraction(annotations: Array<AnnotationFeatures>): Array<AnnotationFeatures>;
-export declare function burialFractionFilter(annotations: Array<AnnotationFeatures>): Array<AnnotationFeatures>;
+import { SequenceAnnotations } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
+export declare function burialFraction(annotations: Array<SequenceAnnotations>): Array<SequenceAnnotations>;
+export declare function burialFractionFilter(annotations: Array<SequenceAnnotations>): Array<SequenceAnnotations>;

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

@@ -9,12 +9,12 @@ function burialFraction(annotations) {
     const burialFractionOut = new Array();
     const asaUnboundAnn = (0, lodash_1.cloneDeep)(annotations).map(ann => {
         var _a;
-        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.AsaUnbound));
+        ann.features = (_a = ann.features) === null || _a === void 0 ? void 0 : _a.filter(f => ((f === null || f === void 0 ? void 0 : f.type) === FeatureType_1.FeatureType.AsaUnbound));
         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); });
     const asaBoundAnn = (0, lodash_1.cloneDeep)(annotations).map(ann => {
         var _a;
-        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.AsaBound));
+        ann.features = (_a = ann.features) === null || _a === void 0 ? void 0 : _a.filter(f => ((f === null || f === void 0 ? void 0 : f.type) === FeatureType_1.FeatureType.AsaBound));
         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); });
     asaUnboundAnn.forEach((asaUnbound) => {
@@ -60,7 +60,7 @@ function burialFraction(annotations) {
 function burialFractionFilter(annotations) {
     return (0, lodash_1.cloneDeep)(annotations).map(ann => {
         var _a;
-        ann.features = (_a = ann.features) === null || _a === void 0 ? void 0 : _a.filter(f => (ann.source !== GqlTypes_1.Source.PdbInterface || (f === null || f === void 0 ? void 0 : f.type) === FeatureType_1.FeatureType.BurialFraction));
+        ann.features = (_a = ann.features) === null || _a === void 0 ? void 0 : _a.filter(f => (ann.source !== GqlTypes_1.AnnotationReference.PdbInterface || (f === null || f === void 0 ? void 0 : f.type) === FeatureType_1.FeatureType.BurialFraction));
         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); });
 }

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

@@ -1,3 +1,3 @@
-import { AnnotationFeatures } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
-export declare function buriedResidues(annotations: Array<AnnotationFeatures>): Array<AnnotationFeatures>;
-export declare function buriedResiduesFilter(annotations: Array<AnnotationFeatures>): Array<AnnotationFeatures>;
+import { SequenceAnnotations } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
+export declare function buriedResidues(annotations: Array<SequenceAnnotations>): Array<SequenceAnnotations>;
+export declare function buriedResiduesFilter(annotations: Array<SequenceAnnotations>): Array<SequenceAnnotations>;

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

@@ -11,11 +11,11 @@ function buriedResidues(annotations) {
     let buriedResidues = {};
     let nBuried = 0;
     mainloop: for (const ann of annotations) {
-        if (ann.source === GqlTypes_1.Source.PdbInstance) {
+        if (ann.source === GqlTypes_1.AnnotationReference.PdbInstance) {
             for (const f of (_a = ann.features) !== null && _a !== void 0 ? _a : []) {
-                if ((f === null || f === void 0 ? void 0 : f.type) === GqlTypes_1.Type.Asa) {
+                if ((f === null || f === void 0 ? void 0 : f.type) === FeatureType_1.FeatureType.Asa) {
                     buriedResidues = (0, lodash_1.cloneDeep)(ann);
-                    buriedResidues.source = GqlTypes_1.Source.PdbInstance;
+                    buriedResidues.source = GqlTypes_1.AnnotationReference.PdbInstance;
                     const feature = (0, lodash_1.cloneDeep)(f);
                     feature.type = FeatureType_1.FeatureType.BuriedResidues;
                     feature.name = "Unbound chain core residues";
@@ -45,7 +45,7 @@ function buriedResidues(annotations) {
 function buriedResiduesFilter(annotations) {
     return (0, lodash_1.cloneDeep)(annotations).map(ann => {
         var _a;
-        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.Asa));
+        ann.features = (_a = ann.features) === null || _a === void 0 ? void 0 : _a.filter(f => ((f === null || f === void 0 ? void 0 : f.type) !== FeatureType_1.FeatureType.Asa));
         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); });
 }

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

@@ -1,4 +1,4 @@
-import { AnnotationFeatures } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
+import { SequenceAnnotations } 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";
@@ -6,9 +6,9 @@ export declare function addUnmodeledTrackBuilder(unmodeledTrackBuilder: Unmodele
 export declare class UnmodeledTrackBuilder {
     private readonly unmodeledDescription;
     filterFeatures(data: {
-        annotations: Array<AnnotationFeatures>;
+        annotations: Array<SequenceAnnotations>;
         rcsbContext?: Partial<PolymerEntityInstanceInterface>;
-    }): Promise<Array<AnnotationFeatures>>;
+    }): Promise<Array<SequenceAnnotations>>;
     getTooltip(): RcsbFvTooltipInterface;
     private buildUnobserved;
 }

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

@@ -47,10 +47,10 @@ class UnmodeledTrackBuilder {
             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;
+                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.FeaturesType.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 : [];
+                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.FeaturesType.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 : [];
@@ -62,7 +62,7 @@ class UnmodeledTrackBuilder {
                 };
             });
             return [{
-                    source: GqlTypes_1.Source.PdbEntity,
+                    source: GqlTypes_1.AnnotationReference.PdbEntity,
                     target_id: rcsbContext.entityId,
                     features: [{
                             type: UNMODELED,
@@ -99,7 +99,7 @@ class UnobservedToolTip {
 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) });
+        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.FeaturesType.UnobservedResidueXyz && (f === null || f === void 0 ? void 0 : f.type) != GqlTypes_1.FeaturesType.UnobservedAtomXyz) });
     });
 }
 const UNMODELED = "UNMODELED";

package/lib/commonjs/RcsbUtils/Translators/PolymerEntityInstanceTranslate.d.ts

@@ -1,11 +1,11 @@
 import { PolymerEntityInstanceInterface } from "../../RcsbCollectTools/DataCollectors/PolymerEntityInstancesCollector";
 import { RcsbFvTrackDataElementInterface } from "@rcsb/rcsb-saguaro/lib/RcsbDataManager/RcsbDataManager";
-import { SequenceReference, Source } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
+import { SequenceReference, AnnotationReference } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
 export interface AlignmentContextInterface {
     queryId: string;
     targetId: string;
     from: SequenceReference | undefined;
-    to: SequenceReference | Source | undefined;
+    to: SequenceReference | AnnotationReference | undefined;
     targetSequenceLength?: number;
     querySequenceLength?: number;
 }

package/lib/commonjs/RcsbUtils/Translators/PolymerEntityInstanceTranslate.js

@@ -70,7 +70,7 @@ class PolymerEntityInstanceTranslate {
         const authResIds = this.instanceAuthResIds.get(asymId);
         if (!authResIds)
             return out;
-        if (reference === GqlTypes_1.SequenceReference.PdbInstance || (reference === GqlTypes_1.SequenceReference.PdbEntity && source === GqlTypes_1.Source.PdbInstance)) {
+        if (reference === GqlTypes_1.SequenceReference.PdbInstance || (reference === GqlTypes_1.SequenceReference.PdbEntity && source === GqlTypes_1.AnnotationReference.PdbInstance)) {
             const x = authResIds[e.begin - 1];
             if (typeof e.end === "number" && authResIds[e.end - 1] != x) {
                 out.beginName = x;
@@ -80,7 +80,7 @@ class PolymerEntityInstanceTranslate {
                 out.beginName = x;
             }
         }
-        else if (source === GqlTypes_1.Source.PdbInstance && e.oriBegin) {
+        else if (source === GqlTypes_1.AnnotationReference.PdbInstance && e.oriBegin) {
             const x = authResIds[e.oriBegin - 1];
             if (typeof e.oriEnd === "number" && authResIds[e.oriEnd - 1] != x) {
                 out.oriBeginName = x;

package/lib/constants.js

@@ -1 +1,2 @@
 export { SearchFacets } from "./RcsbSeacrh/FacetStore/SingleFacets";
+//# sourceMappingURL=constants.js.map

package/lib/constants.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"constants.js","sourceRoot":"","sources":["../src/constants.ts"],"names":[],"mappings":"AAAA,OAAO,EAAC,YAAY,EAAC,MAAM,sCAAsC,CAAC"}

package/lib/plot.js

@@ -1,2 +1,3 @@
 export { buildSearchRequest, buildGroup, buildGroupMembers, buildGroupContent, buildResidueDistribution, searchQueryContextManager } from "./RcsbGroupWeb/RcsbGroupBuilder";
 export { rcsbRequestCtxManager as RcsbRequestContextManager } from "./RcsbRequest/RcsbRequestContextManager";
+//# sourceMappingURL=plot.js.map

package/lib/plot.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"plot.js","sourceRoot":"","sources":["../src/plot.ts"],"names":[],"mappings":"AAAA,OAAO,EACH,kBAAkB,EAClB,UAAU,EACV,iBAAiB,EACjB,iBAAiB,EACjB,wBAAwB,EACxB,yBAAyB,EAC5B,MAAM,iCAAiC,CAAC;AAEzC,OAAO,EAAC,qBAAqB,IAAI,yBAAyB,EAAC,MAAM,yCAAyC,CAAC"}

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@rcsb/rcsb-saguaro-app",
-  "version": "6.3.0",
+  "version": "6.3.2-dev-js-seqcoord.13",
   "description": "RCSB 1D Saguaro Web App",
   "main": "build/app.js",
   "files": [
@@ -26,7 +26,7 @@
     "buildDoc": "typedoc --excludeExternals --externalPattern \"**/node_modules/**\" --plugin typedoc-plugin-missing-exports  --plugin typedoc-theme-hierarchy --theme hierarchy --entryPointStrategy expand ./src && sed -i '' '/---/d' docs/index.html",
     "cpExamples": "ncp examples docs/examples",
     "buildAllDoc": "npm run buildDoc && npm run cpExamples",
-    "publishApp": "npm publish",
+    "publishApp": "npm publish --tag dev-js-seqcoord",
     "test": "echo \"Error: no test specified\" && exit 1"
   },
   "repository": {
@@ -92,7 +92,7 @@
   },
   "dependencies": {
     "@rcsb/rcsb-charts": "^0.2.24",
-    "@rcsb/rcsb-saguaro": "^3.1.0",
+    "@rcsb/rcsb-saguaro": "^3.1.4",
     "@rcsb/rcsb-search-tools": "^0.0.14",
     "ideogram": "^1.47.0",
     "react-bootstrap": "^2.10.4",
@@ -101,7 +101,7 @@
     "string-to-color": "^2.2.2"
   },
   "peerDependencies": {
-    "@rcsb/rcsb-api-tools": "^4.3.0",
+    "@rcsb/rcsb-api-tools": "^5.0.0-dev-js-seqcoord.3",
     "boxicons": "^2.1.4",
     "react": "^18.3.1",
     "react-dom": "^18.3.1"

package/lib/RcsbQueries/Borrego/.graphqlconfig

@@ -1,15 +0,0 @@
-{
-  "name": "Untitled GraphQL Schema",
-  "schemaPath": "schema.graphql",
-  "extensions": {
-    "endpoints": {
-      "Default GraphQL Endpoint": {
-        "url": "https://1d-coordinates.rcsb.org/graphql",
-        "headers": {
-          "user-agent": "JS GraphQL"
-        },
-        "introspect": false
-      }
-    }
-  }
-}

package/lib/commonjs/RcsbQueries/Borrego/.graphqlconfig

@@ -1,15 +0,0 @@
-{
-  "name": "Untitled GraphQL Schema",
-  "schemaPath": "schema.graphql",
-  "extensions": {
-    "endpoints": {
-      "Default GraphQL Endpoint": {
-        "url": "https://1d-coordinates.rcsb.org/graphql",
-        "headers": {
-          "user-agent": "JS GraphQL"
-        },
-        "introspect": false
-      }
-    }
-  }
-}