@rcsb/rcsb-saguaro-app 6.2.3 → 6.2.5-dev-js-seqcoord.1

package/lib/RcsbUtils/PairwiseAlignmentTools/PairwiseAlignmentBuilder.js

@@ -289,3 +289,4 @@ export class PairwiseAlignmentBuilder {
         FeatureTools.mergeBlocks(alignedBlocks);
     }
 }
+//# sourceMappingURL=PairwiseAlignmentBuilder.js.map

package/lib/RcsbUtils/PairwiseAlignmentTools/PairwiseAlignmentBuilder.js.map

@@ -0,0 +1 @@
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package/lib/RcsbUtils/TrackGenerators/AlignmentGlobalBindingSite.js

@@ -10,8 +10,8 @@ export function alignmentGlobalLigandBindingSite() {
     const groupTrackBuilder = groupExternalTrackBuilder();
     return {
         addTo(tracks) {
-            var _a;
             return __awaiter(this, void 0, void 0, function* () {
+                var _a;
                 if (Array.from(bindingSiteMap.values()).length > 0)
                     tracks.annotationTracks.unshift({
                         trackId: "annotationTrack_GLOBAL_BINDINGS",
@@ -30,15 +30,15 @@ export function alignmentGlobalLigandBindingSite() {
             });
         },
         processAlignmentAndFeatures(data) {
-            var _a;
             return __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 __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;
@@ -63,37 +63,36 @@ export 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;
-                                }
-                                else {
-                                    if (bs) {
-                                        bs.value += 1;
-                                        if (bs.value > max)
-                                            max = bs.value;
-                                    }
+                        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;
                                 }
-                            });
+                            }
+                        }
                     });
             });
         });
     }
 }
+//# sourceMappingURL=AlignmentGlobalBindingSite.js.map

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

@@ -0,0 +1 @@
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package/lib/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/RcsbUtils/TrackGenerators/BurialFraction.js

@@ -1,16 +1,16 @@
-import { Source, Type } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
+import { AnnotationReference } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
 import { cloneDeep } from "lodash";
 import { FeatureType } from "../../RcsbExport/FeatureType";
 export function burialFraction(annotations) {
     const burialFractionOut = new Array();
     const asaUnboundAnn = 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) === 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.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 = 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) === 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.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) => {
@@ -56,7 +56,8 @@ export function burialFraction(annotations) {
 export function burialFractionFilter(annotations) {
     return cloneDeep(annotations).map(ann => {
         var _a;
-        ann.features = (_a = ann.features) === null || _a === void 0 ? void 0 : _a.filter(f => (ann.source !== Source.PdbInterface || (f === null || f === void 0 ? void 0 : f.type) === FeatureType.BurialFraction));
+        ann.features = (_a = ann.features) === null || _a === void 0 ? void 0 : _a.filter(f => (ann.source !== AnnotationReference.PdbInterface || (f === null || f === void 0 ? void 0 : f.type) === 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); });
 }
+//# sourceMappingURL=BurialFraction.js.map

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

@@ -0,0 +1 @@
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package/lib/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/RcsbUtils/TrackGenerators/BuriedResidues.js

@@ -1,4 +1,4 @@
-import { Source, Type } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
+import { AnnotationReference } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
 import { cloneDeep } from "lodash";
 import { FeatureType } from "../../RcsbExport/FeatureType";
 export function buriedResidues(annotations) {
@@ -7,11 +7,11 @@ export function buriedResidues(annotations) {
     let buriedResidues = {};
     let nBuried = 0;
     mainloop: for (const ann of annotations) {
-        if (ann.source === Source.PdbInstance) {
+        if (ann.source === AnnotationReference.PdbInstance) {
             for (const f of (_a = ann.features) !== null && _a !== void 0 ? _a : []) {
-                if ((f === null || f === void 0 ? void 0 : f.type) === Type.Asa) {
+                if ((f === null || f === void 0 ? void 0 : f.type) === FeatureType.Asa) {
                     buriedResidues = cloneDeep(ann);
-                    buriedResidues.source = Source.PdbInstance;
+                    buriedResidues.source = AnnotationReference.PdbInstance;
                     const feature = cloneDeep(f);
                     feature.type = FeatureType.BuriedResidues;
                     feature.name = "Unbound chain core residues";
@@ -41,7 +41,8 @@ export function buriedResidues(annotations) {
 export function buriedResiduesFilter(annotations) {
     return 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) !== 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.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); });
 }
+//# sourceMappingURL=BuriedResidues.js.map

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

@@ -0,0 +1 @@
+{"version":3,"file":"BuriedResidues.js","sourceRoot":"","sources":["../../../src/RcsbUtils/TrackGenerators/BuriedResidues.ts"],"names":[],"mappings":"AAAA,OAAO,EAAgC,mBAAmB,EAAC,MAAM,+DAA+D,CAAC;AACjI,OAAO,EAAC,SAAS,EAAC,MAAM,QAAQ,CAAC;AACjC,OAAO,EAAC,WAAW,EAAC,MAAM,8BAA8B,CAAC;AAEzD,MAAM,UAAU,cAAc,CAAC,WAAuC;;IAClE,MAAM,MAAM,GAAW,CAAC,CAAC;IACzB,IAAI,cAAc,GAAuB,EAAE,CAAC;IAC5C,IAAI,OAAO,GAAW,CAAC,CAAC;IACxB,QAAQ,EACJ,KAAI,MAAM,GAAG,IAAI,WAAW,EAAC,CAAC;QAC1B,IAAG,GAAG,CAAC,MAAM,KAAK,mBAAmB,CAAC,WAAW,EAAC,CAAC;YAC/C,KAAI,MAAM,CAAC,IAAI,MAAA,GAAG,CAAC,QAAQ,mCAAI,EAAE,EAAC,CAAC;gBAC/B,IAAG,CAAA,CAAC,aAAD,CAAC,uBAAD,CAAC,CAAE,IAAI,MAAK,WAAW,CAAC,GAAG,EAAC,CAAC;oBAC5B,cAAc,GAAG,SAAS,CAAsB,GAAG,CAAC,CAAC;oBACrD,cAAc,CAAC,MAAM,GAAG,mBAAmB,CAAC,WAAW,CAAC;oBACxD,MAAM,OAAO,GAAY,SAAS,CAAW,CAAC,CAAC,CAAC;oBAChD,OAAO,CAAC,IAAI,GAAG,WAAW,CAAC,cAAc,CAAC;oBAC1C,OAAO,CAAC,IAAI,GAAG,6BAA6B,CAAC;oBAC7C,OAAO,CAAC,WAAW,GAAG,oCAAoC,MAAM,GAAG,CAAC;oBACpE,MAAA,OAAO,CAAC,iBAAiB,0CAAE,OAAO,CAAC,CAAC,CAAA,EAAE;;wBAClC,IAAG,CAAC;4BACA,CAAC,CAAC,MAAM,GAAG,MAAA,CAAC,CAAC,MAAM,0CAAE,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE;gCAC3B,IAAG,CAAC,EAAC,CAAC;oCACF,MAAM,GAAG,GAAW,CAAC,CAAC,GAAG,MAAM,CAAC,CAAC,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC,GAAC,GAAG,CAAC,GAAC,GAAG,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;oCAC5D,OAAO,IAAI,GAAG,CAAC;oCACf,OAAO,GAAG,CAAC;gCACf,CAAC;qCAAI,CAAC;oCACF,OAAO,CAAC,CAAC;gCACb,CAAC;4BACL,CAAC,CAAC,CAAC;oBACX,CAAC,CAAC,CAAC;oBACH,cAAc,CAAC,QAAQ,GAAG,CAAC,OAAO,CAAC,CAAC;oBACpC,MAAM,QAAQ,CAAC;gBACnB,CAAC;YACL,CAAC;QACL,CAAC;IACL,CAAC;IACL,OAAO,OAAO,GAAG,CAAC,IAAI,cAAc,CAAC,CAAC,CAAC,CAAC,cAAc,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC;AACjE,CAAC;AAED,MAAM,UAAU,oBAAoB,CAAC,WAAuC;IACxE,OAAO,SAAS,CAAC,WAAW,CAAC,CAAC,GAAG,CAAC,GAAG,CAAA,EAAE;;QACnC,GAAG,CAAC,QAAQ,GAAG,MAAA,GAAG,CAAC,QAAQ,0CAAE,MAAM,CAAC,CAAC,CAAA,EAAE,CAAA,CAAC,CAAA,CAAC,aAAD,CAAC,uBAAD,CAAC,CAAE,IAAI,MAAG,WAAW,CAAC,GAAG,CAAC,CAAC,CAAC;QACpE,OAAO,GAAG,CAAC;IACf,CAAC,CAAC,CAAC,MAAM,CAAC,GAAG,CAAA,EAAE,eAAA,OAAA,CAAC,CAAC,MAAA,MAAA,GAAG,CAAC,QAAQ,0CAAE,MAAM,mCAAI,CAAC,CAAC,GAAC,CAAC,CAAC,CAAA,EAAA,CAAC,CAAC;AACpD,CAAC"}

package/lib/RcsbUtils/TrackGenerators/GroupExternalTrackBuilder.js

@@ -94,3 +94,4 @@ export function groupExternalTrackBuilder() {
             }];
     }
 }
+//# sourceMappingURL=GroupExternalTrackBuilder.js.map

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

@@ -0,0 +1 @@
+{"version":3,"file":"GroupExternalTrackBuilder.js","sourceRoot":"","sources":["../../../src/RcsbUtils/TrackGenerators/GroupExternalTrackBuilder.ts"],"names":[],"mappings":"AAIA,OAAO,EAAC,IAAI,EAAC,MAAM,QAAQ,CAAC;AAC5B,OAAO,EAAC,uBAAuB,EAAC,MAAM,oDAAoD,CAAC;AAE3F,OAAO,EAAC,UAAU,EAAC,MAAM,uBAAuB,CAAC;AACjD,IAAO,wBAAwB,GAAG,UAAU,CAAC,wBAAwB,CAAC;AACtE,OAAO,EAAC,uBAAuB,EAAC,MAAM,mCAAmC,CAAC;AAG1E,MAAM,UAAU,yBAAyB;IAErC,MAAM,OAAO,GAAW,oBAAoB,CAAC;IAC7C,MAAM,gBAAgB,GAAW,oBAAoB,CAAC;IACtD,MAAM,iBAAiB,GAAwB,IAAI,KAAK,EAAgB,CAAC;IACzE,MAAM,kBAAkB,GAA4B,IAAI,uBAAuB,EAAE,CAAC;IAClF,IAAI,gBAAiD,CAAC;IAEtD,OAAO;QACH,KAAK,CAAC,MAA8G;YAChH,IAAG,iBAAiB,CAAC,MAAM,IAAI,CAAC;gBAC5B,OAAO,IAAI,OAAO,CAAC,CAAC,OAAO,EAAC,EAAE;oBAC1B,OAAO,EAAE,CAAC;gBACd,CAAC,CAAC,CAAC;YACP,gBAAgB,CAAC,OAAO,CAAC,KAAK,CAAA,EAAE,CAAA,MAAM,CAAC,eAAe,CAAC,OAAO,CAAC,KAAK,CAAC,CAAC,CAAC;YACvE,OAAO,IAAI,OAAO,CAAC,CAAC,OAAO,EAAC,EAAE;gBAC1B,OAAO,EAAE,CAAC;YACd,CAAC,CAAC,CAAC;QACP,CAAC;QACD,2BAA2B,CAAC,IAAiF;YACzG,OAAO,IAAI,OAAO,CAAC,CAAC,OAAO,EAAC,EAAE;gBAC1B,OAAO,EAAE,CAAC;YACd,CAAC,CAAC,CAAC;QACP,CAAC;QACD,cAAc,CAAC,IAA8C;YACzD,kBAAkB,CAAC,eAAe,CAAC,IAAI,CAAC,WAAW,CAAC,CAAC;YACrD,IAAI,CAAC,WAAW,CAAC,OAAO,CAAC,GAAG,CAAA,EAAE;;gBAC1B,GAAG,CAAC,QAAQ,GAAG,MAAA,GAAG,CAAC,QAAQ,0CAAE,MAAM,CAAC,CAAC,CAAA,EAAE,CAAA,CAAC,CAAA,CAAC,aAAD,CAAC,uBAAD,CAAC,CAAE,IAAI,KAAI,mBAAmB,CAAC,CAAC,CAAC;YAC7E,CAAC,CAAC,CAAA;YACF,OAAO,IAAI,OAAO,CAA6B,CAAC,OAAO,EAAC,EAAE;gBACtD,OAAO,CAAC,IAAI,CAAC,WAAW,CAAC,CAAC;YAC9B,CAAC,CAAC,CAAC;QACP,CAAC;QACD,gBAAgB,CAAC,IAA2F;YACxG,kBAAkB,CAAC,iBAAiB,CAAC,IAAI,CAAC,UAAU,CAAC,CAAC;YACtD,iBAAiB,CAAC,IAAI,CAAC,UAAU,CAAC,CAAC;YACnC,OAAO,IAAI,OAAO,CAAqB,CAAC,OAAO,EAAC,EAAE;gBAC9C,OAAO,CAAC,IAAI,CAAC,UAAU,CAAC,CAAC;YAC7B,CAAC,CAAC,CAAC;QACP,CAAC;KACJ,CAAC;IAEF,SAAS,iBAAiB,CAAC,SAA6B;;QACpD,IAAG,iBAAiB,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC;YAC9B,OAAO;QACX,CAAC;QACD,IAAG,SAAS,CAAC,gBAAgB,IAAI,SAAS,CAAC,cAAc,IAAI,SAAS,CAAC,gBAAgB,KAAI,MAAA,SAAS,CAAC,cAAc,0CAAE,MAAM,CAAA;YACvH,MAAM,IAAI,KAAK,CAAC,8CAA8C,CAAC,CAAC;QAEpE,MAAA,SAAS,CAAC,cAAc,0CAAE,OAAO,CAAC,EAAE,CAAA,EAAE;YAClC,wBAAwB,CAAC,EAAE,CAAC,CAAC;YAC7B,iBAAiB,CAAC,IAAI,CAAC,IAAI,IAAI,CAAS,EAAE,CAAC,CAAC,CAAC;QACjD,CAAC,CAAC,CAAC;QACH,MAAM,eAAe,GAAG,iBAAiB,CAAC,GAAG,CAAC,CAAC,CAAC,EAAC,CAAC,EAAC,EAAE;YACjD,MAAM,KAAK,GAAW,CAAC,CAAC;YACxB,MAAM,WAAW,GAAkB,CAAC,CAAC,SAAS,EAAE,CAAC,MAAM,CAAC,CAAC,CAAA,EAAE,CAAA,CAAC,CAAC,MAAM,IAAE,GAAG,CAAC,CAAC,KAAK,CAAC,CAAC,EAAC,KAAK,CAAC,CAAC,GAAG,CAAC,CAAC,CAAA,EAAE,CAAA,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,KAAK,GAAC,GAAG,CAAC,GAAC,GAAG,CAAC,CAAC;YAC7H,MAAM,OAAO,GAAY,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,SAAS,EAAE,CAAC,MAAM,CAAC,CAAC,CAAA,EAAE,CAAA,CAAC,CAAC,MAAM,IAAE,GAAG,CAAC,CAAC,CAAC,CAAC,CAAC,KAAK,GAAC,GAAG,CAAC,GAAC,GAAG,CAAC;YAC7F,OAAO;gBACH,KAAK,EAAE,CAAC,GAAC,CAAC;gBACV,MAAM,EAAE,WAAW,CAAC,GAAG,CAAC,CAAC,CAAC,EAAC,CAAC,EAAC,EAAE,CAAA,WAAW,CAAC,KAAK,CAAC,CAAC,EAAC,CAAC,CAAC,GAAC,CAAC,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,EAAC,CAAC,EAAC,EAAE,CAAA,CAAC,GAAC,CAAC,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,GAAC,OAAO,EAAC,CAAC,CAAC,CAAC;gBACnG,KAAK,EAAE,CAAC,CAAC,SAAS,EAAE,CAAC,CAAC,CAAC,CAAC,MAAM,IAAI,GAAG,CAAC,CAAC,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,SAAS,EAAE,CAAC,CAAC,CAAC,CAAC,KAAK,GAAC,GAAG,CAAC,GAAC,GAAG,CAAC,CAAC,CAAC,CAAC;aACzF,CAAC;QACN,CAAC,CAAC,CAAC;QACH,MAAM,WAAW,GAAG,iBAAiB,CAAC,GAAG,CAAC,CAAC,CAAC,EAAC,CAAC,EAAC,EAAE,CAAA,CAAC;YAC9C,KAAK,EAAE,CAAC,GAAC,CAAC;YACV,KAAK,EAAE,CAAC,CAAC,IAAI,EAAE;YACf,WAAW,EAAE,CAAC,CAAC,CAAC,SAAS,EAAE,CAAC,MAAM,CAAC,CAAC,CAAA,EAAE,CAAA,CAAC,CAAC,CAAC,KAAK,IAAE,IAAI,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC,EAAC,EAAE,CAAC,CAAC,GAAG,CAAC,CAAC,CAAA,EAAE,CAAA,CAAC,CAAC,CAAC,MAAM,CAAC,OAAO,CAAC,GAAG,EAAC,KAAK,CAAC,GAAC,IAAI,GAAC,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,KAAK,GAAC,GAAG,CAAC,GAAC,GAAG,CAAC,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;SACxJ,CAAC,CAAC,CAAA;QACH,gBAAgB,GAAG,CAAC;gBAChB,OAAO,EAAE,gCAAgC;gBACzC,WAAW,kDAA+B;gBAC1C,OAAO,EAAE,IAAI;gBACb,UAAU,EAAE,SAAS;gBACrB,YAAY,EAAE;oBACV,UAAU,EAAC,EAAE;oBACb,MAAM,EAAC,CAAC,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,CAAC;iBACvF;gBACD,WAAW,EAAE,EAAE;gBACf,cAAc,EAAE,uBAAuB,CAAC,mBAAmB,CAAC,OAAO;gBACnE,QAAQ,EAAE,gBAAgB;gBAC1B,SAAS,EAAE,eAAe;aAC7B,EAAC;gBACE,OAAO,EAAE,gCAAgC;gBACzC,WAAW,8CAA6B;gBACxC,OAAO,EAAE,IAAI;gBACb,UAAU,EAAE,SAAS;gBACrB,cAAc,EAAE,uBAAuB,CAAC,mBAAmB,CAAC,OAAO;gBACnE,QAAQ,EAAE,OAAO;gBACjB,eAAe,EAAE,IAAI;gBACrB,SAAS,EAAE,WAAW;aACzB,CAAC,CAAC;IACP,CAAC;AAEL,CAAC"}

package/lib/RcsbUtils/TrackGenerators/Logo.js

@@ -43,3 +43,4 @@ export class Logo {
         return -this.aaTypes().map(aa => (this.get(aa) != 0 ? (this.get(aa) / this.n) * (Math.log(this.get(aa) / this.n) / Math.log(this.aaTypes().length)) : 0)).reduce((p, v) => (p + v));
     }
 }
+//# sourceMappingURL=Logo.js.map

package/lib/RcsbUtils/TrackGenerators/Logo.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"Logo.js","sourceRoot":"","sources":["../../../src/RcsbUtils/TrackGenerators/Logo.ts"],"names":[],"mappings":"AACA,OAAO,EAAC,UAAU,EAAC,MAAM,uBAAuB,CAAC;AACjD,IAAO,wBAAwB,GAAG,UAAU,CAAC,wBAAwB,CAAC;AACtE,IAAO,aAAa,GAAG,UAAU,CAAC,aAAa,CAAC;AAEhD,MAAM,OAAO,IAAI;IAKb,YAAY,IAAqB;QAHhB,YAAO,GAAwB,MAAM,EAAE,CAAC;QACjD,MAAC,GAAW,CAAC,CAAC;QAGlB,wBAAwB,CAAC,IAAI,CAAC,CAAC;QAC/B,IAAI,CAAC,OAAO,CAAC,CAAC,CAAA,EAAE;YACZ,aAAa,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC;YACxB,aAAa,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC;YACvB,IAAI,CAAC,OAAO,CAAC,CAAC,CAAC,MAAW,CAAC,GAAG,CAAC,CAAC,KAAK,CAAC;YACtC,IAAI,CAAC,CAAC,IAAI,CAAC,CAAC,KAAK,CAAC;QACtB,CAAC,CAAC,CAAC;IACP,CAAC;IAEO,OAAO;QACX,OAAO,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,OAAO,CAAQ,CAAC;IAC5C,CAAC;IAED;;;OAGG;IAEH,GAAG,CAAC,EAAK;QACL,MAAM,CAAC,GAAG,IAAI,CAAC,OAAO,CAAC,EAAE,CAAC,CAAC;QAC3B,aAAa,CAAC,CAAC,CAAC,CAAA;QAChB,OAAO,CAAC,CAAC;IACb,CAAC;IAED,KAAK;QACD,OAAO,IAAI,CAAC,CAAC,CAAC;IAClB,CAAC;IAED,OAAO,CAAC,QAAiC;QACrC,IAAI,CAAC,OAAO,EAAE,CAAC,OAAO,CAAE,CAAC,EAAE,EAAE,CAAC,EAAC,EAAE;YAC7B,QAAQ,CAAC,EAAE,EAAC,CAAC,CAAC,CAAC;QACnB,CAAC,CAAC,CAAC;IACP,CAAC;IAED,IAAI;QACA,OAAO,IAAI,CAAC,OAAO,EAAE,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAC,EAAE,CAAA,CAAC,IAAI,CAAC,OAAO,CAAC,CAAC,CAAC,GAAC,IAAI,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC;IAC7E,CAAC;IAED,SAAS;QACL,OAAO,IAAI,CAAC,OAAO,EAAE,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAC,EAAE,CAAA,CAAC,IAAI,CAAC,OAAO,CAAC,CAAC,CAAC,GAAC,IAAI,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,CAAA,EAAE,CAAA,CAAC,EAAC,MAAM,EAAC,CAAC,EAAE,KAAK,EAAC,IAAI,CAAC,GAAG,CAAC,CAAC,CAAC,GAAC,IAAI,CAAC,CAAC,EAAC,CAAC,CAAC,CAAC;IACzH,CAAC;IAED,OAAO;QACH,OAAO,CAAC,IAAI,CAAC,OAAO,EAAE,CAAC,GAAG,CAAS,EAAE,CAAA,EAAE,CAAA,CAAC,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,IAAE,CAAC,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAC,IAAI,CAAC,CAAC,CAAC,GAAG,CAAC,IAAI,CAAC,GAAG,CAAC,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAC,IAAI,CAAC,CAAC,CAAC,GAAG,IAAI,CAAC,GAAG,CAAC,IAAI,CAAC,OAAO,EAAE,CAAC,MAAM,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,EAAC,CAAC,EAAC,EAAE,CAAA,CAAC,CAAC,GAAC,CAAC,CAAC,CAAC,CAAC;IACnL,CAAC;CAEJ"}

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

@@ -1,5 +1,5 @@
 import { __awaiter } from "tslib";
-import { Source, Type } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
+import { AnnotationReference, FeaturesType } 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";
@@ -12,10 +12,10 @@ export function addUnmodeledTrackBuilder(unmodeledTrackBuilder, externalTrackBui
         ];
     });
     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);
+            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
             });
         }) });
@@ -38,15 +38,15 @@ export class UnmodeledTrackBuilder {
         return new UnobservedToolTip(this.unmodeledDescription);
     }
     buildUnobserved(annotations, rcsbContext) {
-        var _a;
         return __awaiter(this, void 0, void 0, function* () {
+            var _a;
             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;
+                return (_c = (_b = (_a = ann.features) === null || _a === void 0 ? void 0 : _a.filter(f => (f === null || f === void 0 ? void 0 : f.type) == 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) == 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) == 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 : [];
@@ -58,7 +58,7 @@ export class UnmodeledTrackBuilder {
                 };
             });
             return [{
-                    source: Source.PdbEntity,
+                    source: AnnotationReference.PdbEntity,
                     target_id: rcsbContext.entityId,
                     features: [{
                             type: UNMODELED,
@@ -94,7 +94,8 @@ 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) != Type.UnobservedResidueXyz && (f === null || f === void 0 ? void 0 : f.type) != 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) != FeaturesType.UnobservedResidueXyz && (f === null || f === void 0 ? void 0 : f.type) != FeaturesType.UnobservedAtomXyz) });
     });
 }
 const UNMODELED = "UNMODELED";
+//# sourceMappingURL=UnmodeledTrackBuilder.js.map

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

@@ -0,0 +1 @@
+{"version":3,"file":"UnmodeledTrackBuilder.js","sourceRoot":"","sources":["../../../src/RcsbUtils/TrackGenerators/UnmodeledTrackBuilder.ts"],"names":[],"mappings":";AAAA,OAAO,EAIH,mBAAmB,EACnB,YAAY,EACf,MAAM,+DAA+D,CAAC;AAEvE,OAAO,EAAC,KAAK,EAAC,MAAM,QAAQ,CAAC;AAC7B,OAAO,EAAC,qBAAqB,EAAC,MAAM,6CAA6C,CAAC;AAElF,OAAO,EAAC,aAAa,EAAC,MAAM,6CAA6C,CAAC;AAM1E,MAAM,UAAU,wBAAwB,CACpC,qBAA4C,EAC5C,oBAAoD;IAEpD,MAAM,YAAY,GAAG,CAAO,IAG3B,EAAuC,EAAE;;QACtC,OAAO;YACH,GAAI,MAAA,MAAM,CAAA,MAAA,oBAAoB,aAApB,oBAAoB,uBAApB,oBAAoB,CAAE,cAAc,qEAAG,IAAI,CAAC,CAAA,mCAAI,EAAE;YAC5D,GAAI,MAAM,qBAAqB,CAAC,cAAc,CAAC,IAAI,CAAC;SACvD,CAAC;IACN,CAAC,CAAA,CAAA;IACD,uCACQ,oBAAoB,KACxB,cAAc,EAAE,CAAO,IAAI,EAAE,EAAE;;YAC3B,MAAA,oBAAoB,aAApB,oBAAoB,uBAApB,oBAAoB,CAAE,cAAc,qEAAG,IAAI,CAAC,CAAC;YAC7C,OAAO,YAAY,CAAC;gBAChB,WAAW,EAAE,MAAA,MAAM,CAAA,MAAA,oBAAoB,aAApB,oBAAoB,uBAApB,oBAAoB,CAAE,cAAc,qEAAG,IAAI,CAAC,CAAA,mCAAI,IAAI,CAAC,WAAW;gBACnF,WAAW,EAAE,IAAI,CAAC,WAAW;aAChC,CAAC,CAAC;QACP,CAAC,CAAA,IACJ;AACL,CAAC;AAED,MAAM,OAAO,qBAAqB;IAAlC;QAEqB,yBAAoB,GAAgC,IAAI,GAAG,EAAE,CAAC;IAqDnF,CAAC;IApDgB,cAAc,CAAC,IAG3B;;YACG,IAAI,CAAC,IAAI,CAAC,WAAW;gBACjB,OAAO,IAAI,CAAC,WAAW,CAAC;YAC5B,OAAO;gBACH,GAAG,MAAM,IAAI,CAAC,eAAe,CAAC,IAAI,CAAC,WAAW,EAAE,IAAI,CAAC,WAAW,CAAC;gBACjE,GAAG,gBAAgB,CAAC,IAAI,CAAC,WAAW,CAAC;aACxC,CAAC;QACN,CAAC;KAAA;IAEM,UAAU;QACb,OAAO,IAAI,iBAAiB,CAAC,IAAI,CAAC,oBAAoB,CAAC,CAAC;IAC5D,CAAC;IAEa,eAAe,CAAC,WAAuC,EAAE,WAAoD;;;YACvH,MAAM,UAAU,GAAG,CAAC,MAAM,qBAAqB,CAAC,mBAAmB,CAAC,MAAA,WAAW,CAAC,QAAQ,mCAAI,MAAM,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,SAAS,CAAC,MAAM,CAAC;YACzH,MAAM,gBAAgB,GAAG,KAAK,CAAC,IAAI,CAAC,WAAW,CAAC,MAAM,CAClD,GAAG,CAAC,EAAE;;gBAAC,OAAA,MAAA,MAAA,MAAA,GAAG,CAAC,QAAQ,0CAAE,MAAM,CACvB,CAAC,CAAC,EAAE,CAAC,CAAA,CAAC,aAAD,CAAC,uBAAD,CAAC,CAAE,IAAI,KAAI,YAAY,CAAC,oBAAoB,CACpD,0CAAE,MAAM,mCAAI,CAAC,GAAG,CAAC,CAAA;aAAA,CACrB,CAAC,GAAG,CACD,GAAG,CAAC,EAAE;;gBAAC,OAAA,MAAA,MAAA,GAAG,CAAC,QAAQ,0CAAE,MAAM,CACvB,CAAC,CAAC,EAAiB,EAAE,CAAC,CAAA,CAAC,aAAD,CAAC,uBAAD,CAAC,CAAE,IAAI,KAAI,YAAY,CAAC,oBAAoB,CACrE,mCAAI,EAAE,CAAA;aAAA,CACV,CAAC,IAAI,EAAE,CAAC,GAAG,CACR,OAAO,CAAC,EAAE;;gBAAC,OAAA,MAAA,MAAA,OAAO,CAAC,iBAAiB,0CAAE,MAAM,CACxC,CAAC,CAAC,EAAiC,EAAE,CAAC,OAAO,CAAC,IAAI,WAAW,CAChE,mCAAI,EAAE,CAAA;aAAA,CACV,CAAC,IAAI,EAAE,CAAC,GAAG,CACR,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,UAAU,IAAI,CAAC,CAAC,UAAU,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,UAAU,EAAC,CAAC,CAAC,UAAU,GAAC,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,CAC9E,CAAC,IAAI,EAAE,CAAC,MAAM,CACX,CAAC,GAAG,EAAC,GAAG,EAAE,EAAE,WAAC,OAAA,GAAG,CAAC,GAAG,CAAC,GAAG,EAAE,CAAC,MAAA,GAAG,CAAC,GAAG,CAAC,GAAG,CAAC,mCAAI,CAAC,CAAC,GAAG,CAAC,CAAC,CAAA,EAAA,EAClD,IAAI,GAAkB,CACzB,CAAC,OAAO,EAAE,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,GAAG,EAAC,UAAU,CAAC,EAAC,EAAE;gBACjC,IAAI,CAAC,oBAAoB,CAAC,GAAG,CAAC,GAAG,WAAW,CAAC,QAAQ,IAAI,GAAG,EAAE,EAAE,CAAC,UAAU,EAAE,UAAU,CAAC,CAAC,CAAC;gBAC1F,OAAO;oBACH,UAAU,EAAE,GAAG;oBACf,MAAM,EAAE,CAAC,IAAI,CAAC,KAAK,CAAC,UAAU,GAAG,UAAU,GAAG,GAAG,CAAC,GAAC,GAAG,CAAC;iBAC1D,CAAA;YACL,CAAC,CAAC,CAAC;YACH,OAAO,CAAC;oBACJ,MAAM,EAAE,mBAAmB,CAAC,SAAS;oBACrC,SAAS,EAAE,WAAW,CAAC,QAAQ;oBAC/B,QAAQ,EAAE,CAAC;4BACP,IAAI,EAAE,SAAyB;4BAC/B,iBAAiB,EAAE,gBAAgB;yBACtC,CAAC;iBACL,CAAC,CAAA;QACN,CAAC;KAAA;CAEJ;AAED,MAAM,iBAAiB;IAKnB,YAAY,gBAA6C;QAHxC,mBAAc,GAAkB,IAAI,aAAa,EAAE,CAAC;QAIjE,IAAI,CAAC,gBAAgB,GAAG,gBAAgB,CAAC;IAC7C,CAAC;IAED,WAAW,CAAC,CAAqC;QAC7C,OAAO,IAAI,CAAC,cAAc,CAAC,WAAW,CAAC,CAAC,CAAC,CAAC;IAC9C,CAAC;IAED,sBAAsB,CAAC,CAAqC;QACxD,IAAG,CAAC,CAAC,KAAK,IAAI,SAAyB;YACnC,OAAO,IAAI,CAAC,0BAA0B,CAAC,CAAC,CAAC,CAAC;QAC9C,OAAO,IAAI,CAAC,cAAc,CAAC,sBAAsB,CAAC,CAAC,CAAC,CAAC;IACzD,CAAC;IAED,0BAA0B,CAAC,CAAqC;;QAC5D,IAAG,CAAC,IAAI,CAAC,gBAAgB,CAAC,GAAG,CAAC,GAAG,CAAC,CAAC,QAAQ,IAAI,CAAC,CAAC,KAAK,EAAE,CAAC;YACrD,OAAO,SAAS,CAAC;QACrB,MAAM,qBAAqB,GAAG,QAAQ,CAAC,aAAa,CAAQ,KAAK,CAAC,CAAC;QACnE,MAAM,CAAC,UAAU,EAAE,KAAK,CAAC,GAAG,MAAA,IAAI,CAAC,gBAAgB,CAAC,GAAG,CAAC,GAAG,CAAC,CAAC,QAAQ,IAAI,CAAC,CAAC,KAAK,EAAE,CAAC,mCAAI,CAAC,CAAC,EAAC,CAAC,CAAC,CAAC;QAC3F,qBAAqB,CAAC,MAAM,CAAC,gBAAgB,UAAU,OAAO,KAAK,SAAS,CAAC,CAAC;QAC9E,OAAO,qBAAqB,CAAC;IACjC,CAAC;CAEJ;AAED,SAAS,gBAAgB,CAAC,WAAuC;IAC7D,OAAO,WAAW,CAAC,GAAG,CAAC,GAAG,CAAA,EAAE;;QACxB,uCACO,GAAG,KACN,QAAQ,EAAE,MAAA,GAAG,CAAC,QAAQ,0CAAE,MAAM,CAC1B,CAAC,CAAA,EAAE,CAAC,CAAA,CAAC,aAAD,CAAC,uBAAD,CAAC,CAAE,IAAI,KAAI,YAAY,CAAC,oBAAoB,IAAI,CAAA,CAAC,aAAD,CAAC,uBAAD,CAAC,CAAE,IAAI,KAAI,YAAY,CAAC,iBAAiB,CAChG,IACJ;IACL,CAAC,CAAC,CAAC;AACP,CAAC;AAED,MAAM,SAAS,GAAG,WAAW,CAAC"}

package/lib/RcsbUtils/Translators/AssemblyInterfacesTranslate.js

@@ -13,3 +13,4 @@ export class AssemblyInterfacesTranslate {
         return this.rawData;
     }
 }
+//# sourceMappingURL=AssemblyInterfacesTranslate.js.map

package/lib/RcsbUtils/Translators/AssemblyInterfacesTranslate.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"AssemblyInterfacesTranslate.js","sourceRoot":"","sources":["../../../src/RcsbUtils/Translators/AssemblyInterfacesTranslate.ts"],"names":[],"mappings":"AAEA,MAAM,OAAO,2BAA2B;IAKpC,YAAY,IAAwC;QAF5C,iBAAY,GAA8B,IAAI,GAAG,EAAyB,CAAC;QAG/E,IAAI,CAAC,OAAO,GAAG,IAAI,CAAC;QACpB,IAAI,CAAC,OAAO,CAAC,CAAC,CAAA,EAAE;YACZ,IAAI,CAAC,YAAY,CAAC,GAAG,CAAC,CAAC,CAAC,MAAM,EAAE,CAAC,CAAC,YAAY,CAAC,CAAC;QACpD,CAAC,CAAC,CAAA;IACN,CAAC;IAED,aAAa,CAAC,UAAkB;QAC5B,OAAO,IAAI,CAAC,YAAY,CAAC,GAAG,CAAC,UAAU,CAAC,CAAC;IAC7C,CAAC;IAED,UAAU;QACN,OAAO,IAAI,CAAC,OAAO,CAAC;IACxB,CAAC;CAEJ"}

package/lib/RcsbUtils/Translators/EntryAssemblyTranslate.js

@@ -6,3 +6,4 @@ export class EntryAssemblyTranslate {
         return this.rawData;
     }
 }
+//# sourceMappingURL=EntryAssemblyTranslate.js.map

package/lib/RcsbUtils/Translators/EntryAssemblyTranslate.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"EntryAssemblyTranslate.js","sourceRoot":"","sources":["../../../src/RcsbUtils/Translators/EntryAssemblyTranslate.ts"],"names":[],"mappings":"AAEA,MAAM,OAAO,sBAAsB;IAG/B,YAAY,IAAuD;QAC/D,IAAI,CAAC,OAAO,GAAG,IAAI,CAAC;IACxB,CAAC;IAED,OAAO;QACH,OAAO,IAAI,CAAC,OAAO,CAAC;IACxB,CAAC;CACJ"}

package/lib/RcsbUtils/Translators/InterfaceInstanceTranslate.js

@@ -18,3 +18,4 @@ export class InterfaceInstanceTranslate {
         return this.rawData;
     }
 }
+//# sourceMappingURL=InterfaceInstanceTranslate.js.map

package/lib/RcsbUtils/Translators/InterfaceInstanceTranslate.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"InterfaceInstanceTranslate.js","sourceRoot":"","sources":["../../../src/RcsbUtils/Translators/InterfaceInstanceTranslate.ts"],"names":[],"mappings":"AAEA,MAAM,OAAO,0BAA0B;IAMnC,YAAY,IAAuC;QAHlC,cAAS,GAAiC,IAAI,GAAG,EAA4B,CAAC;QAC9E,iBAAY,GAA6D,IAAI,GAAG,EAAwD,CAAC;QAGtJ,IAAI,CAAC,OAAO,GAAG,IAAI,CAAC;QACpB,IAAI,CAAC,OAAO,CAAC,CAAC,CAAA,EAAE;YACZ,IAAI,CAAC,SAAS,CAAC,GAAG,CAAC,CAAC,CAAC,MAAM,EAAE,CAAC,CAAC,OAAO,CAAC,CAAC;YACxC,IAAI,CAAC,YAAY,CAAC,GAAG,CAAC,CAAC,CAAC,MAAM,EAAE,CAAC,CAAC,WAAW,CAAC,CAAC;QACnD,CAAC,CAAC,CAAA;IACN,CAAC;IAED,YAAY,CAAC,MAAc;QACvB,OAAO,IAAI,CAAC,SAAS,CAAC,GAAG,CAAC,MAAM,CAAC,CAAC;IACtC,CAAC;IAED,cAAc,CAAC,MAAc;QACzB,OAAO,IAAI,CAAC,YAAY,CAAC,GAAG,CAAC,MAAM,CAAC,CAAC;IACzC,CAAC;IAED,UAAU;QACN,OAAO,IAAI,CAAC,OAAO,CAAC;IACxB,CAAC;CAEJ"}

package/lib/RcsbUtils/Translators/MultipleEntityInstanceTranslate.js

@@ -31,3 +31,4 @@ export class MultipleEntityInstanceTranslate {
         return Operator.uniqueValues(Array.from(this.entityInstanceTranslateMap.values()).map(peit => peit.getData()).flat().map(e => e.asymId));
     }
 }
+//# sourceMappingURL=MultipleEntityInstanceTranslate.js.map

package/lib/RcsbUtils/Translators/MultipleEntityInstanceTranslate.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"MultipleEntityInstanceTranslate.js","sourceRoot":"","sources":["../../../src/RcsbUtils/Translators/MultipleEntityInstanceTranslate.ts"],"names":[],"mappings":"AAAA,OAAO,EAAC,8BAA8B,EAAC,MAAM,kCAAkC,CAAC;AAEhF,OAAO,EAAC,QAAQ,EAAC,MAAM,qBAAqB,CAAC;AAC7C,OAAO,EAAC,YAAY,EAAC,MAAM,mDAAmD,CAAC;AAE/E,MAAM,OAAO,+BAA+B;IAA5C;QAEqB,+BAA0B,GAAgD,IAAI,GAAG,EAA0C,CAAC;IAqCjJ,CAAC;IAnCU,GAAG,CAAC,IAA2C;QAClD,MAAM,0BAA0B,GAAuD,IAAI,GAAG,EAAiD,CAAC;QAChJ,IAAI,CAAC,OAAO,CAAC,CAAC,CAAA,EAAE;;YACZ,MAAM,QAAQ,GAAW,CAAC,CAAC,OAAO,GAAC,YAAY,CAAC,MAAM,GAAC,CAAC,CAAC,QAAQ,CAAC;YAClE,IAAG,CAAC,0BAA0B,CAAC,GAAG,CAAC,QAAQ,CAAC;gBACxC,0BAA0B,CAAC,GAAG,CAAC,QAAQ,EAAE,IAAI,KAAK,EAAkC,CAAC,CAAA;YACzF,MAAA,0BAA0B,CAAC,GAAG,CAAC,QAAQ,CAAC,0CAAE,IAAI,CAAC,CAAC,CAAC,CAAC;QACtD,CAAC,CAAC,CAAC;QACH,0BAA0B,CAAC,OAAO,CAAC,CAAC,CAAC,EAAC,QAAQ,EAAC,EAAE;YAC7C,IAAI,CAAC,0BAA0B,CAAC,GAAG,CAAC,QAAQ,EAAE,IAAI,8BAA8B,CAAC,CAAC,CAAC,CAAC,CAAC;QACzF,CAAC,CAAC,CAAC;IACP,CAAC;IAEM,SAAS,CAAC,QAAgB;QAC7B,OAAO,IAAI,CAAC,0BAA0B,CAAC,GAAG,CAAC,QAAQ,CAAC,CAAC;IACzD,CAAC;IAEM,WAAW;QACd,OAAO,KAAK,CAAC,IAAI,CAAS,IAAI,CAAC,0BAA0B,CAAC,IAAI,EAAE,CAAC,CAAC;IACtE,CAAC;IAEM,UAAU;QACb,OAAO,QAAQ,CAAC,YAAY,CACxB,KAAK,CAAC,IAAI,CAAS,IAAI,CAAC,0BAA0B,CAAC,IAAI,EAAE,CAAC,CAAC,GAAG,CAAC,QAAQ,CAAA,EAAE,CAAA,YAAY,CAAC,WAAW,CAAC,QAAQ,CAAC,CAAC,OAAO,CAAC,CACvH,CAAC;IACN,CAAC;IAEM,YAAY;QACf,OAAO,QAAQ,CAAC,YAAY,CACxB,KAAK,CAAC,IAAI,CAAiC,IAAI,CAAC,0BAA0B,CAAC,MAAM,EAAE,CAAC,CAAC,GAAG,CAAC,IAAI,CAAA,EAAE,CAAA,IAAI,CAAC,OAAO,EAAE,CAAC,CAAC,IAAI,EAAE,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,MAAM,CAAC,CAC3I,CAAC;IACN,CAAC;CAIJ"}

package/lib/RcsbUtils/Translators/PolymerEntityChromosomeTranslate.js

@@ -6,3 +6,4 @@ export class PolymerEntityChromosomeTranslate {
         return this.rawData;
     }
 }
+//# sourceMappingURL=PolymerEntityChromosomeTranslate.js.map

package/lib/RcsbUtils/Translators/PolymerEntityChromosomeTranslate.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"PolymerEntityChromosomeTranslate.js","sourceRoot":"","sources":["../../../src/RcsbUtils/Translators/PolymerEntityChromosomeTranslate.ts"],"names":[],"mappings":"AACA,MAAM,OAAO,gCAAgC;IAIzC,YAAa,SAAqC;QAC9C,IAAI,CAAC,OAAO,GAAG,SAAS,CAAC;IAC7B,CAAC;IAED,OAAO;QACH,OAAO,IAAI,CAAC,OAAO,CAAC;IACxB,CAAC;CAEJ"}

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

@@ -1,4 +1,4 @@
-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";
 import { TagDelimiter } from "@rcsb/rcsb-api-tools/build/RcsbUtils/TagDelimiter";
 export class PolymerEntityInstanceTranslate {
     constructor(data) {
@@ -67,7 +67,7 @@ export class PolymerEntityInstanceTranslate {
         const authResIds = this.instanceAuthResIds.get(asymId);
         if (!authResIds)
             return out;
-        if (reference === SequenceReference.PdbInstance || (reference === SequenceReference.PdbEntity && source === Source.PdbInstance)) {
+        if (reference === SequenceReference.PdbInstance || (reference === SequenceReference.PdbEntity && source === AnnotationReference.PdbInstance)) {
             const x = authResIds[e.begin - 1];
             if (typeof e.end === "number" && authResIds[e.end - 1] != x) {
                 out.beginName = x;
@@ -77,7 +77,7 @@ export class PolymerEntityInstanceTranslate {
                 out.beginName = x;
             }
         }
-        else if (source === Source.PdbInstance && e.oriBegin) {
+        else if (source === AnnotationReference.PdbInstance && e.oriBegin) {
             const x = authResIds[e.oriBegin - 1];
             if (typeof e.oriEnd === "number" && authResIds[e.oriEnd - 1] != x) {
                 out.oriBeginName = x;
@@ -90,3 +90,4 @@ export class PolymerEntityInstanceTranslate {
         return out;
     }
 }
+//# sourceMappingURL=PolymerEntityInstanceTranslate.js.map

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

@@ -0,0 +1 @@
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package/lib/app.js

@@ -9,3 +9,4 @@ export { PlainAlignmentTrackFactory } from "./RcsbFvWeb/RcsbFvFactories/RcsbFvTr
 export { MsaAlignmentTrackFactory } from "./RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/MsaAlignmentTrackFactory";
 export { AnnotationsTrackFactory } from "./RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/AnnotationsTrackFactory";
 export { AlignmentTrackFactory } from "./RcsbFvWeb/RcsbFvFactories/RcsbFvTrackFactory/TrackFactoryImpl/AlignmentTrackFactory";
+//# sourceMappingURL=app.js.map

package/lib/app.js.map

@@ -0,0 +1 @@
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package/lib/commonjs/RcsbAnnotationConfig/RcsbAnnotationConfig.ac.json

@@ -630,7 +630,8 @@
             "type": "METAL_COORDINATION",
             "display": "bond",
             "color": "#aaaada",
-            "title": "METAL COORDINATION"
+            "title": "METAL COORDINATION",
+            "ignore": true
         }, {
             "type": "COVALENT_BOND",
             "display": "bond",

package/lib/commonjs/RcsbAnnotationConfig/RcsbAnnotationConfig.d.ts

@@ -1,4 +1,4 @@
-import { AnnotationFeatures, Feature } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
+import { SequenceAnnotations, Features } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
 import { RcsbFvDisplayTypes } from "@rcsb/rcsb-saguaro/lib/RcsbFv/RcsbFvConfig/RcsbFvDefaultConfigValues";
 import { AnnotationConfigInterface, RcsbAnnotationConfigInterface } from "./AnnotationConfigInterface";
 import { AnnotationRequestContext } from "../RcsbCollectTools/AnnotationCollector/AnnotationCollectorInterface";
@@ -19,7 +19,7 @@ export declare class RcsbAnnotationConfig {
     uniprotOrder(): Array<string>;
     instanceOrder(): Array<string>;
     entityOrder(): Array<string>;
-    getAnnotationType(requestConfig: AnnotationRequestContext, ann: AnnotationFeatures, feature: Feature): Promise<string>;
+    getAnnotationType(requestConfig: AnnotationRequestContext, ann: SequenceAnnotations, feature: Features): Promise<string>;
     isMergedType(type: string): boolean;
     getMergeConfig(type: string): RcsbMergedTypesInterface | undefined;
     private addNewType;

package/lib/commonjs/RcsbAnnotationConfig/RcsbAnnotationConfig.js

@@ -43,8 +43,8 @@ class RcsbAnnotationConfig {
     }
     //TODO refactor how title and type are defined. Can this be split in two different methods ?
     getAnnotationType(requestConfig, ann, feature) {
-        var _a, _b, _c;
         return tslib_1.__awaiter(this, void 0, void 0, function* () {
+            var _a, _b, _c;
             const trackTitle = typeof requestConfig.trackTitle === "function" ? (yield requestConfig.trackTitle(ann, feature)) : undefined;
             const titleSuffix = typeof requestConfig.titleSuffix === "function" ? (yield requestConfig.titleSuffix(ann, feature)) : undefined;
             const typeSuffix = typeof requestConfig.typeSuffix === "function" ? (yield requestConfig.typeSuffix(ann, feature)) : undefined;

package/lib/commonjs/RcsbChartWeb/HistogramChartComponent.d.ts

@@ -1,4 +1,3 @@
-/// <reference types="react" />
 import { AbstractChartComponent } from "./AbsractChartComponent";
 export declare class HistogramChartComponent extends AbstractChartComponent {
     render(): JSX.Element;

package/lib/commonjs/RcsbCollectTools/AlignmentCollector/AlignmentCollector.d.ts

@@ -1,6 +1,6 @@
 import { AlignmentCollectConfig, AlignmentCollectorInterface } from "./AlignmentCollectorInterface";
 import { RcsbClient } from "../../RcsbGraphQL/RcsbClient";
-import { AlignmentResponse } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
+import { SequenceAlignments } from "@rcsb/rcsb-api-tools/build/RcsbGraphQL/Types/Borrego/GqlTypes";
 export declare class AlignmentCollector implements AlignmentCollectorInterface {
     private requestStatus;
     readonly rcsbFvQuery: RcsbClient;
@@ -8,10 +8,10 @@ export declare class AlignmentCollector implements AlignmentCollectorInterface {
     private alignmentResponse;
     private readonly alignmentResponseSubject;
     private readonly alignmentLengthSubject;
-    collect(requestConfig: AlignmentCollectConfig, filter?: Array<string>): Promise<AlignmentResponse>;
+    collect(requestConfig: AlignmentCollectConfig, filter?: Array<string>): Promise<SequenceAlignments>;
     getTargets(): Promise<Array<string>>;
-    getAlignment(): Promise<AlignmentResponse>;
+    getAlignment(): Promise<SequenceAlignments>;
     getAlignmentLength(): Promise<number>;
-    requestAlignment(requestConfig: AlignmentCollectConfig): Promise<AlignmentResponse>;
+    requestAlignment(requestConfig: AlignmentCollectConfig): Promise<SequenceAlignments>;
     private complete;
 }