react-msaview 3.2.0 → 3.2.2

package/dist/components/tree/renderTreeCanvas.js.map

@@ -1 +1 @@
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package/dist/components/util.js

@@ -33,9 +33,6 @@ export function makeTicks(start, end, bpPerPx, emitMajor = true, emitMinor = tru
     const gridPitch = chooseGridPitch(bpPerPx, 60, 15);
     let minBase = start;
     let maxBase = end;
-    if (minBase === null || maxBase === null) {
-        return [];
-    }
     if (bpPerPx < 0) {
         ;
         [minBase, maxBase] = [maxBase, minBase];

package/dist/components/util.js.map

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package/dist/ggplotPalettes.js.map

@@ -1 +1 @@
-{"version":3,"file":"ggplotPalettes.js","sourceRoot":"","sources":["../src/ggplotPalettes.ts"],"names":[],"mappings":"AAAA,MAAM,QAAQ,GAAG;IACf,CAAC,SAAS,CAAC;IACX,CAAC,SAAS,EAAE,SAAS,CAAC;IACtB,CAAC,SAAS,EAAE,SAAS,EAAE,SAAS,CAAC;IACjC,CAAC,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,CAAC;IAC5C,CAAC,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,CAAC;IACvD,CAAC,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,CAAC;IAClE,CAAC,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,CAAC;IAC7E;QACE,SAAS;QACT,SAAS;QACT,SAAS;QACT,SAAS;QACT,SAAS;QACT,SAAS;QACT,SAAS;QACT,SAAS;KACV;CACF,CAAA;AAED,MAAM,UAAU,UAAU,CAAC,CAAS;IAClC,OAAO,QAAQ,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,QAAQ,CAAC,MAAM,GAAG,CAAC,CAAC,CAAC,CAAA;AACnD,CAAC;AAED,eAAe,QAAQ,CAAA"}
+{"version":3,"file":"ggplotPalettes.js","sourceRoot":"","sources":["../src/ggplotPalettes.ts"],"names":[],"mappings":"AAAA,MAAM,QAAQ,GAAG;IACf,CAAC,SAAS,CAAC;IACX,CAAC,SAAS,EAAE,SAAS,CAAC;IACtB,CAAC,SAAS,EAAE,SAAS,EAAE,SAAS,CAAC;IACjC,CAAC,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,CAAC;IAC5C,CAAC,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,CAAC;IACvD,CAAC,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,CAAC;IAClE,CAAC,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,EAAE,SAAS,CAAC;IAC7E;QACE,SAAS;QACT,SAAS;QACT,SAAS;QACT,SAAS;QACT,SAAS;QACT,SAAS;QACT,SAAS;QACT,SAAS;KACV;CACF,CAAA;AAED,MAAM,UAAU,UAAU,CAAC,CAAS;IAClC,OAAO,QAAQ,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,QAAQ,CAAC,MAAM,GAAG,CAAC,CAAC,CAAE,CAAA;AACpD,CAAC;AAED,eAAe,QAAQ,CAAA"}

package/dist/launchInterProScan.js

@@ -6,7 +6,7 @@ async function runInterProScan({ seq, onProgress, onJobId, programs, model, }) {
         method: 'POST',
         body: new URLSearchParams({
             email: 'colin.diesh@gmail.com',
-            sequence: `${seq}`,
+            sequence: seq,
             programs: programs.join(','),
         }),
     });
@@ -15,7 +15,7 @@ async function runInterProScan({ seq, onProgress, onJobId, programs, model, }) {
         jobId,
         onProgress,
     });
-    return loadInterProScanResultsWithStatus({ jobId, model });
+    await loadInterProScanResultsWithStatus({ jobId, model });
 }
 export function loadInterProScanResults(jobId) {
     return jsonfetch(`${base}/iprscan5/result/${jobId}/json`);
@@ -23,6 +23,7 @@ export function loadInterProScanResults(jobId) {
 async function wait({ onProgress, jobId, }) {
     const url = `${base}/iprscan5/status/${jobId}`;
     try {
+        // eslint-disable-next-line @typescript-eslint/no-unnecessary-condition
         while (true) {
             for (let i = 0; i < 10; i++) {
                 await timeout(1000);
@@ -45,14 +46,13 @@ export async function launchInterProScan({ algorithm, seq, programs, onJobId, on
     try {
         onProgress({ msg: `Launching ${algorithm} MSA` });
         if (algorithm === 'interproscan') {
-            const result = await runInterProScan({
+            await runInterProScan({
                 seq,
                 onJobId,
                 onProgress,
                 programs,
                 model,
             });
-            return result;
         }
         throw new Error('unknown algorithm');
     }

package/dist/launchInterProScan.js.map

@@ -1 +1 @@
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+{"version":3,"file":"launchInterProScan.js","sourceRoot":"","sources":["../src/launchInterProScan.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,UAAU,EAAE,MAAM,oBAAoB,CAAA;AAC/C,OAAO,EAAE,SAAS,EAAE,SAAS,EAAE,OAAO,EAAE,MAAM,cAAc,CAAA;AAG5D,MAAM,IAAI,GAAG,2CAA2C,CAAA;AAmBxD,KAAK,UAAU,eAAe,CAAC,EAC7B,GAAG,EACH,UAAU,EACV,OAAO,EACP,QAAQ,EACR,KAAK,GAON;IACC,MAAM,KAAK,GAAG,MAAM,SAAS,CAAC,GAAG,IAAI,eAAe,EAAE;QACpD,MAAM,EAAE,MAAM;QACd,IAAI,EAAE,IAAI,eAAe,CAAC;YACxB,KAAK,EAAE,uBAAuB;YAC9B,QAAQ,EAAE,GAAG;YACb,QAAQ,EAAE,QAAQ,CAAC,IAAI,CAAC,GAAG,CAAC;SAC7B,CAAC;KACH,CAAC,CAAA;IACF,OAAO,EAAE,CAAC,KAAK,CAAC,CAAA;IAChB,MAAM,IAAI,CAAC;QACT,KAAK;QACL,UAAU;KACX,CAAC,CAAA;IACF,MAAM,iCAAiC,CAAC,EAAE,KAAK,EAAE,KAAK,EAAE,CAAC,CAAA;AAC3D,CAAC;AAED,MAAM,UAAU,uBAAuB,CAAC,KAAa;IACnD,OAAO,SAAS,CACd,GAAG,IAAI,oBAAoB,KAAK,OAAO,CACxC,CAAA;AACH,CAAC;AAED,KAAK,UAAU,IAAI,CAAC,EAClB,UAAU,EACV,KAAK,GAIN;IACC,MAAM,GAAG,GAAG,GAAG,IAAI,oBAAoB,KAAK,EAAE,CAAA;IAC9C,IAAI,CAAC;QACH,uEAAuE;QACvE,OAAO,IAAI,EAAE,CAAC;YACZ,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,EAAE,EAAE,CAAC,EAAE,EAAE,CAAC;gBAC5B,MAAM,OAAO,CAAC,IAAI,CAAC,CAAA;gBACnB,UAAU,CAAC,EAAE,GAAG,EAAE,mBAAmB,EAAE,GAAG,CAAC,EAAE,EAAE,GAAG,EAAE,CAAC,CAAA;YACvD,CAAC;YACD,MAAM,MAAM,GAAG,MAAM,SAAS,CAAC,GAAG,CAAC,CAAA;YACnC,IAAI,MAAM,CAAC,QAAQ,CAAC,UAAU,CAAC,EAAE,CAAC;gBAChC,MAAK;YACP,CAAC;YACD,IAAI,MAAM,CAAC,QAAQ,CAAC,SAAS,CAAC,EAAE,CAAC;gBAC/B,MAAM,IAAI,KAAK,CAAC,wBAAwB,KAAK,EAAE,CAAC,CAAA;YAClD,CAAC;QACH,CAAC;IACH,CAAC;YAAS,CAAC;QACT,UAAU,EAAE,CAAA;IACd,CAAC;AACH,CAAC;AAED,MAAM,CAAC,KAAK,UAAU,kBAAkB,CAAC,EACvC,SAAS,EACT,GAAG,EACH,QAAQ,EACR,OAAO,EACP,UAAU,EACV,KAAK,GAQN;IACC,IAAI,CAAC;QACH,UAAU,CAAC,EAAE,GAAG,EAAE,aAAa,SAAS,MAAM,EAAE,CAAC,CAAA;QACjD,IAAI,SAAS,KAAK,cAAc,EAAE,CAAC;YACjC,MAAM,eAAe,CAAC;gBACpB,GAAG;gBACH,OAAO;gBACP,UAAU;gBACV,QAAQ;gBACR,KAAK;aACN,CAAC,CAAA;QACJ,CAAC;QACD,MAAM,IAAI,KAAK,CAAC,mBAAmB,CAAC,CAAA;IACtC,CAAC;YAAS,CAAC;QACT,UAAU,EAAE,CAAA;IACd,CAAC;AACH,CAAC;AAED,MAAM,CAAC,KAAK,UAAU,iCAAiC,CAAC,EACtD,KAAK,EACL,KAAK,GAIN;IACC,IAAI,CAAC;QACH,KAAK,CAAC,SAAS,CAAC;YACd,GAAG,EAAE,0BAA0B,KAAK,iGAAiG;YACrI,GAAG,EAAE,6DAA6D,KAAK,OAAO;SAC/E,CAAC,CAAA;QACF,MAAM,GAAG,GAAG,MAAM,uBAAuB,CAAC,KAAK,CAAC,CAAA;QAChD,KAAK,CAAC,sBAAsB,CAC1B,MAAM,CAAC,WAAW,CAAC,GAAG,CAAC,OAAO,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,CAAC,CAC7D,CAAA;QACD,KAAK,CAAC,cAAc,CAAC,IAAI,CAAC,CAAA;QAC1B,UAAU,CAAC,KAAK,CAAC,CAAC,MAAM,CAAC,uBAAuB,KAAK,UAAU,EAAE,SAAS,CAAC,CAAA;IAC7E,CAAC;IAAC,OAAO,CAAC,EAAE,CAAC;QACX,OAAO,CAAC,KAAK,CAAC,CAAC,CAAC,CAAA;QAChB,UAAU,CAAC,KAAK,CAAC,CAAC,WAAW,CAAC,GAAG,CAAC,EAAE,EAAE,CAAC,CAAC,CAAA;IAC1C,CAAC;YAAS,CAAC;QACT,KAAK,CAAC,SAAS,EAAE,CAAA;IACnB,CAAC;AACH,CAAC"}

package/dist/model/DialogQueue.d.ts

@@ -8,7 +8,7 @@ export declare function DialogQueueSessionMixin(): import("mobx-state-tree").IMo
     /**
      * #getter
      */
-    readonly DialogComponent: DialogComponentType;
+    readonly DialogComponent: DialogComponentType | undefined;
     /**
      * #getter
      */

package/dist/model/DialogQueue.js

@@ -6,7 +6,6 @@ export function DialogQueueSessionMixin() {
     return types
         .model('DialogQueueSessionMixin', {})
         .volatile(() => ({
-        // eslint-disable-next-line @typescript-eslint/no-explicit-any
         queueOfDialogs: [],
     }))
         .views(self => ({

package/dist/model/DialogQueue.js.map

@@ -1 +1 @@
-{"version":3,"file":"DialogQueue.js","sourceRoot":"","sources":["../../src/model/DialogQueue.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,KAAK,EAAE,MAAM,iBAAiB,CAAA;AAEvC;;GAEG;AACH,MAAM,UAAU,uBAAuB;IACrC,OAAO,KAAK;SACT,KAAK,CAAC,yBAAyB,EAAE,EAAE,CAAC;SACpC,QAAQ,CAAC,GAAG,EAAE,CAAC,CAAC;QACf,8DAA8D;QAC9D,cAAc,EAAE,EAAkC;KACnD,CAAC,CAAC;SACF,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd;;WAEG;QACH,IAAI,eAAe;YACjB,OAAO,IAAI,CAAC,cAAc,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAA;QACpC,CAAC;QACD;;WAEG;QACH,IAAI,WAAW;YACb,OAAO,IAAI,CAAC,cAAc,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAA;QACpC,CAAC;KACF,CAAC,CAAC;SACF,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QAChB;;WAEG;QACH,kBAAkB;YAChB,IAAI,CAAC,cAAc,GAAG,IAAI,CAAC,cAAc,CAAC,KAAK,CAAC,CAAC,CAAC,CAAA;QACpD,CAAC;QACD;;WAEG;QACH,WAAW,CACT,EAAgE;YAEhE,MAAM,CAAC,SAAS,EAAE,KAAK,CAAC,GAAG,EAAE,CAAC,GAAG,EAAE;gBACjC,IAAI,CAAC,kBAAkB,EAAE,CAAA;YAC3B,CAAC,CAAC,CAAA;YACF,IAAI,CAAC,cAAc,GAAG,CAAC,GAAG,IAAI,CAAC,cAAc,EAAE,CAAC,SAAS,EAAE,KAAK,CAAC,CAAC,CAAA;QACpE,CAAC;KACF,CAAC,CAAC,CAAA;AACP,CAAC"}
+{"version":3,"file":"DialogQueue.js","sourceRoot":"","sources":["../../src/model/DialogQueue.ts"],"names":[],"mappings":"AACA,OAAO,EAAE,KAAK,EAAE,MAAM,iBAAiB,CAAA;AAEvC;;GAEG;AACH,MAAM,UAAU,uBAAuB;IACrC,OAAO,KAAK;SACT,KAAK,CAAC,yBAAyB,EAAE,EAAE,CAAC;SACpC,QAAQ,CAAC,GAAG,EAAE,CAAC,CAAC;QACf,cAAc,EAAE,EAAkC;KACnD,CAAC,CAAC;SACF,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd;;WAEG;QACH,IAAI,eAAe;YACjB,OAAO,IAAI,CAAC,cAAc,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAA;QACpC,CAAC;QACD;;WAEG;QACH,IAAI,WAAW;YACb,OAAO,IAAI,CAAC,cAAc,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAA;QACpC,CAAC;KACF,CAAC,CAAC;SACF,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QAChB;;WAEG;QACH,kBAAkB;YAChB,IAAI,CAAC,cAAc,GAAG,IAAI,CAAC,cAAc,CAAC,KAAK,CAAC,CAAC,CAAC,CAAA;QACpD,CAAC;QACD;;WAEG;QACH,WAAW,CACT,EAAgE;YAEhE,MAAM,CAAC,SAAS,EAAE,KAAK,CAAC,GAAG,EAAE,CAAC,GAAG,EAAE;gBACjC,IAAI,CAAC,kBAAkB,EAAE,CAAA;YAC3B,CAAC,CAAC,CAAA;YACF,IAAI,CAAC,cAAc,GAAG,CAAC,GAAG,IAAI,CAAC,cAAc,EAAE,CAAC,SAAS,EAAE,KAAK,CAAC,CAAC,CAAA;QACpE,CAAC;KACF,CAAC,CAAC,CAAA;AACP,CAAC"}

package/dist/model.d.ts

@@ -7,6 +7,7 @@ import type { FileLocation as FileLocationType } from '@jbrowse/core/util/types'
 export declare function isGzip(buf: Buffer): boolean;
 import { type NodeWithIds, type NodeWithIdsAndLength } from './util';
 import ClustalMSA from './parsers/ClustalMSA';
+import EmfMSA from './parsers/EmfMSA';
 import StockholmMSA from './parsers/StockholmMSA';
 import FastaMSA from './parsers/FastaMSA';
 import type { InterProScanResults } from './launchInterProScan';
@@ -75,7 +76,10 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
         }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
     }>> | import("mobx-state-tree").ModelCreationType<import("mobx-state-tree/dist/internal").ExtractCFromProps<{
         locationType: import("mobx-state-tree").ISimpleType<"BlobLocation">;
-        name: import("mobx-state-tree").ISimpleType<string>;
+        name: import("mobx-state-tree" /**
+         * #property
+         * turned off tracks
+         */).ISimpleType<string>;
         blobId: import("mobx-state-tree").ISimpleType<string>;
     }>> | import("mobx-state-tree").ModelCreationType<import("mobx-state-tree/dist/internal").ExtractCFromProps<{
         locationType: import("mobx-state-tree").ISimpleType<"LocalPathLocation">;
@@ -94,11 +98,17 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
         blobId: import("mobx-state-tree").ISimpleType<string>;
     }> | import("mobx-state-tree").ModelSnapshotType<{
         locationType: import("mobx-state-tree").ISimpleType<"LocalPathLocation">;
-        localPath: import("mobx-state-tree").ISimpleType<string>;
+        localPath: import("mobx-state-tree" /**
+         * #volatile
+         * resize handle width between tree and msa area, px
+         */).ISimpleType<string>;
     }>, import("mobx-state-tree").ModelInstanceType<{
         locationType: import("mobx-state-tree").ISimpleType<"BlobLocation">;
         name: import("mobx-state-tree").ISimpleType<string>;
-        blobId: import("mobx-state-tree").ISimpleType<string>;
+        blobId: import("mobx-state-tree" /**
+         * #volatile
+         * the currently mouse-hovered row
+         */).ISimpleType<string>;
     }, {}> | import("mobx-state-tree").ModelInstanceType<{
         locationType: import("mobx-state-tree").ISimpleType<"LocalPathLocation">;
         localPath: import("mobx-state-tree").ISimpleType<string>;
@@ -106,18 +116,20 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
         locationType: "UriLocation";
         uri: string;
     } & Partial<import("mobx-state-tree/dist/internal").ExtractCFromProps<{
-        locationType: import("mobx-state-tree").ISimpleType<"UriLocation">;
+        locationType: import("mobx-state-tree" /**
+         * #volatile
+         * the currently mouse-click column
+         */).ISimpleType<"UriLocation">;
         uri: import("mobx-state-tree").ISimpleType<string>;
         baseUri: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
-        internetAccountId: import("mobx-state-tree").IMaybe<import("mobx-state-tree" /**
+        internetAccountId: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
+        internetAccountPreAuthorization: import("mobx-state-tree").IMaybe<import("mobx-state-tree" /**
          * #volatile
-         */).ISimpleType<string>>;
-        internetAccountPreAuthorization: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IModelType<{
-            internetAccountType: import("mobx-state-tree" /**
+         */).IModelType<{
+            internetAccountType: import("mobx-state-tree").ISimpleType<string>;
+            authInfo: import("mobx-state-tree" /**
              * #volatile
-             *
-             */).ISimpleType<string>;
-            authInfo: import("mobx-state-tree").IType<any, any, any>;
+             */).IType<any, any, any>;
         }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
     }>> & import("mobx-state-tree/dist/internal").NonEmptyObject)>, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
     msaFilehandle: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISnapshotProcessor<import("mobx-state-tree").ITypeUnion<import("mobx-state-tree").ModelCreationType<import("mobx-state-tree/dist/internal").ExtractCFromProps<{
@@ -244,7 +256,7 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
 }, {
     queueOfDialogs: [import("@jbrowse/core/util").DialogComponentType, any][];
 } & {
-    readonly DialogComponent: import("@jbrowse/core/util").DialogComponentType;
+    readonly DialogComponent: import("@jbrowse/core/util").DialogComponentType | undefined;
     readonly DialogProps: any;
 } & {
     removeActiveDialog(): void;
@@ -442,6 +454,7 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
     setData(data: {
         msa?: string;
         tree?: string;
+        treeMetadata?: string;
     }): void;
     /**
      * #action
@@ -464,6 +477,10 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
      */
     setTreeMetadata(result: string): void;
 } & {
+    /**
+     * #getter
+     */
+    readonly realAllowedGappyness: number;
     /**
      * #getter
      */
@@ -496,8 +513,8 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
     getRowData(name: string): {
         data: {
             name: string;
-            accession: string;
-            dbxref: string;
+            accession: string | undefined;
+            dbxref: string | undefined;
         } | undefined;
     };
     /**
@@ -515,7 +532,7 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
     /**
      * #getter
      */
-    readonly menuItems: never[];
+    menuItems(): never[];
     /**
      * #getter
      */
@@ -523,7 +540,7 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
     /**
      * #getter
      */
-    readonly MSA: StockholmMSA | FastaMSA | ClustalMSA | null;
+    readonly MSA: StockholmMSA | FastaMSA | EmfMSA | ClustalMSA | null;
     /**
      * #getter
      */
@@ -557,10 +574,18 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
      * #getter
      */
     readonly blanks: number[];
+    /**
+     * #getter
+     */
+    readonly blanksSet: Set<number>;
     /**
      * #getter
      */
     readonly rows: [string, string][];
+    /**
+     * #getter
+     */
+    readonly rowMap: Map<string, string>;
     /**
      * #getter
      */
@@ -620,7 +645,7 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
     /**
      * #getter
      */
-    readonly blocks2d: number[][];
+    readonly blocks2d: (readonly [number, number])[];
     /**
      * #getter
      */
@@ -726,12 +751,21 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
      * #getter
      */
     readonly showHorizontalScrollbar: boolean;
+    /**
+     * #getter
+     */
+    readonly rowNamesSet: Map<string, number>;
+    /**
+     * #method
+     * return a row-specific letter, or undefined if gap
+     */
+    mouseOverCoordToRowLetter(rowName: string, position: number): string | undefined;
     /**
      * #method
-     * return a row-specific sequence coordinate, skipping gaps, given a global
-     * coordinate
+     * return a row-specific sequence coordinate, skipping gaps, given a
+     * global coordinate
      */
-    globalCoordToRowSpecificSeqCoord(rowName: string, position: number): number;
+    mouseOverCoordToGapRemovedRowCoord(rowName: string, position: number): number | undefined;
     /**
      * #method
      * return a global coordinate given a row-specific sequence coordinate
@@ -752,11 +786,11 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
     /**
      * #getter
      */
-    readonly tidyTypes: Map<string, Accession>;
+    readonly tidyInterProAnnotationTypes: Map<string, Accession>;
     /**
      * #getter
      */
-    readonly tidyAnnotations: {
+    readonly tidyInterProAnnotations: {
         id: string;
         name: string;
         accession: string;
@@ -767,7 +801,7 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
     /**
      * #getter
      */
-    readonly tidyFilteredAnnotations: {
+    readonly tidyFilteredInterProAnnotations: {
         id: string;
         name: string;
         accession: string;
@@ -778,14 +812,14 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
     /**
      * #getter
      */
-    readonly tidyFilteredGatheredAnnotations: Record<string, {
+    readonly tidyFilteredGatheredInterProAnnotations: Record<string, {
         id: string;
         name: string;
         accession: string;
         description: string;
         start: number;
         end: number;
-    }[] | undefined>;
+    }[]>;
 } & {
     /**
      * #getter