react-msaview 3.1.4 → 3.1.6

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

@@ -1 +1 @@
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package/dist/components/dialogs/SettingsDialog.js

@@ -16,42 +16,52 @@ function FormControlLabel2(rest) {
     return (React.createElement("div", null,
         React.createElement(FormControlLabel, { ...rest })));
 }
+function Checkbox2({ checked, label, onChange, }) {
+    return (React.createElement(FormControlLabel2, { control: React.createElement(Checkbox, { checked: checked, onChange: onChange }), label: label }));
+}
 const SettingsContent = observer(function ({ model }) {
-    const { classes } = useStyles();
-    const { bgColor, colWidth, colorSchemeName, drawTree, drawNodeBubbles, labelsAlignRight, noTree, rowHeight, showBranchLen, treeWidthMatchesArea, treeWidth, } = model;
     return (React.createElement(React.Fragment, null,
-        React.createElement("div", null,
-            React.createElement(Button, { onClick: () => model.clearHidden() }, "Clear hidden"),
-            React.createElement("h1", null, "Tree options"),
-            React.createElement(FormControlLabel2, { control: React.createElement(Checkbox, { checked: showBranchLen, onChange: () => model.setShowBranchLen(!showBranchLen) }), label: "Show branch length?" }),
-            React.createElement(FormControlLabel2, { control: React.createElement(Checkbox, { checked: drawNodeBubbles, onChange: () => model.setDrawNodeBubbles(!drawNodeBubbles) }), label: "Draw clickable bubbles on tree branches?" }),
-            React.createElement(FormControlLabel2, { control: React.createElement(Checkbox, { checked: drawTree, onChange: () => model.setDrawTree(!drawTree) }), label: "Show tree?" }),
-            React.createElement(FormControlLabel2, { control: React.createElement(Checkbox, { checked: labelsAlignRight, onChange: () => model.setLabelsAlignRight(!labelsAlignRight) }), label: "Tree labels align right?" }),
-            !noTree ? (React.createElement("div", null,
-                React.createElement(FormControlLabel2, { control: React.createElement(Checkbox, { checked: treeWidthMatchesArea, onChange: () => model.setTreeWidthMatchesArea(!treeWidthMatchesArea) }), label: "Make tree width fit to tree area?" }),
-                !treeWidthMatchesArea ? (React.createElement("div", { className: classes.flex },
-                    React.createElement(Typography, null,
-                        "Tree width (",
-                        treeWidth,
-                        "px)"),
-                    React.createElement(Slider, { className: classes.field, min: 50, max: 600, value: treeWidth, onChange: (_, val) => model.setTreeWidth(val) }))) : null)) : null),
-        React.createElement("div", null,
-            React.createElement("h1", null, "MSA options"),
-            React.createElement(FormControlLabel2, { control: React.createElement(Checkbox, { checked: bgColor, onChange: () => model.setBgColor(!bgColor) }), label: "Color background tiles of MSA?" }),
-            React.createElement("div", { className: classes.flex },
-                React.createElement(Typography, null,
-                    "Column width (",
-                    colWidth,
-                    "px)"),
-                React.createElement(Slider, { className: classes.field, min: 1, max: 50, value: colWidth, onChange: (_, val) => model.setColWidth(val) })),
-            React.createElement("div", { className: classes.flex },
+        React.createElement(TreeSettings, { model: model }),
+        React.createElement(MSASettings, { model: model })));
+});
+function TreeSettings({ model }) {
+    const { classes } = useStyles();
+    const { drawTree, drawNodeBubbles, labelsAlignRight, noTree, showBranchLen, treeWidthMatchesArea, treeWidth, } = model;
+    return (React.createElement("div", null,
+        React.createElement("h1", null, "Tree options"),
+        React.createElement(Checkbox2, { checked: showBranchLen, onChange: () => model.setShowBranchLen(!showBranchLen), label: "Show branch length?" }),
+        React.createElement(Checkbox2, { checked: drawNodeBubbles, onChange: () => model.setDrawNodeBubbles(!drawNodeBubbles), label: "Draw clickable bubbles on tree branches?" }),
+        React.createElement(Checkbox2, { checked: drawTree, onChange: () => model.setDrawTree(!drawTree), label: "Show tree?" }),
+        React.createElement(Checkbox2, { checked: labelsAlignRight, onChange: () => model.setLabelsAlignRight(!labelsAlignRight), label: "Tree labels align right?" }),
+        !noTree ? (React.createElement("div", null,
+            React.createElement(Checkbox2, { checked: treeWidthMatchesArea, onChange: () => model.setTreeWidthMatchesArea(!treeWidthMatchesArea), label: "Make tree width fit to tree area?" }),
+            !treeWidthMatchesArea ? (React.createElement("div", { className: classes.flex },
                 React.createElement(Typography, null,
-                    "Row height (",
-                    rowHeight,
+                    "Tree width (",
+                    treeWidth,
                     "px)"),
-                React.createElement(Slider, { className: classes.field, min: 1, max: 50, value: rowHeight, onChange: (_, val) => model.setRowHeight(val) })),
-            React.createElement(TextField, { select: true, label: "Color scheme", value: colorSchemeName, onChange: event => model.setColorSchemeName(event.target.value) }, Object.keys(colorSchemes).map(option => (React.createElement(MenuItem, { key: option, value: option }, option)))))));
-});
+                React.createElement(Slider, { className: classes.field, min: 50, max: 600, value: treeWidth, onChange: (_, val) => model.setTreeWidth(val) }))) : null)) : null));
+}
+function MSASettings({ model }) {
+    const { classes } = useStyles();
+    const { bgColor, colWidth, colorSchemeName, rowHeight } = model;
+    return (React.createElement("div", null,
+        React.createElement("h1", null, "MSA options"),
+        React.createElement(Checkbox2, { checked: bgColor, onChange: () => model.setBgColor(!bgColor), label: "Color background tiles of MSA?" }),
+        React.createElement("div", { className: classes.flex },
+            React.createElement(Typography, null,
+                "Column width (",
+                colWidth,
+                "px)"),
+            React.createElement(Slider, { className: classes.field, min: 1, max: 50, value: colWidth, onChange: (_, val) => model.setColWidth(val) })),
+        React.createElement("div", { className: classes.flex },
+            React.createElement(Typography, null,
+                "Row height (",
+                rowHeight,
+                "px)"),
+            React.createElement(Slider, { className: classes.field, min: 1, max: 50, value: rowHeight, onChange: (_, val) => model.setRowHeight(val) })),
+        React.createElement(TextField, { select: true, label: "Color scheme", value: colorSchemeName, onChange: event => model.setColorSchemeName(event.target.value) }, Object.keys(colorSchemes).map(option => (React.createElement(MenuItem, { key: option, value: option }, option))))));
+}
 const SettingsDialog = observer(function ({ model, onClose, }) {
     return (React.createElement(Dialog, { open: true, onClose: () => onClose(), title: "Settings" },
         React.createElement(DialogContent, null,

package/dist/components/dialogs/SettingsDialog.js.map

@@ -1 +1 @@
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package/dist/measureTextCanvas.d.ts

@@ -1 +1 @@
-export default function measureTextCanvas(text: string, fontSize: number): number;
+export declare function measureTextCanvas(text: string, fontSize: number): number;

package/dist/measureTextCanvas.js

@@ -1,5 +1,5 @@
 let canvasHandle;
-export default function measureTextCanvas(text, fontSize) {
+export function measureTextCanvas(text, fontSize) {
     if (!canvasHandle) {
         canvasHandle = document.createElement('canvas');
     }

package/dist/measureTextCanvas.js.map

@@ -1 +1 @@
-{"version":3,"file":"measureTextCanvas.js","sourceRoot":"","sources":["../src/measureTextCanvas.ts"],"names":[],"mappings":"AAAA,IAAI,YAA2C,CAAA;AAE/C,MAAM,CAAC,OAAO,UAAU,iBAAiB,CAAC,IAAY,EAAE,QAAgB;IACtE,IAAI,CAAC,YAAY,EAAE,CAAC;QAClB,YAAY,GAAG,QAAQ,CAAC,aAAa,CAAC,QAAQ,CAAC,CAAA;IACjD,CAAC;IAED,MAAM,GAAG,GAAG,YAAY,CAAC,UAAU,CAAC,IAAI,CAAC,CAAA;IACzC,IAAI,CAAC,GAAG,EAAE,CAAC;QACT,MAAM,IAAI,KAAK,CAAC,mBAAmB,CAAC,CAAA;IACtC,CAAC;IACD,GAAG,CAAC,IAAI,GAAG,GAAG,CAAC,IAAI,CAAC,OAAO,CAAC,OAAO,EAAE,GAAG,QAAQ,IAAI,CAAC,CAAA;IACrD,OAAO,GAAG,CAAC,WAAW,CAAC,IAAI,CAAC,CAAC,KAAK,CAAA;AACpC,CAAC"}
+{"version":3,"file":"measureTextCanvas.js","sourceRoot":"","sources":["../src/measureTextCanvas.ts"],"names":[],"mappings":"AAAA,IAAI,YAA2C,CAAA;AAE/C,MAAM,UAAU,iBAAiB,CAAC,IAAY,EAAE,QAAgB;IAC9D,IAAI,CAAC,YAAY,EAAE,CAAC;QAClB,YAAY,GAAG,QAAQ,CAAC,aAAa,CAAC,QAAQ,CAAC,CAAA;IACjD,CAAC;IAED,MAAM,GAAG,GAAG,YAAY,CAAC,UAAU,CAAC,IAAI,CAAC,CAAA;IACzC,IAAI,CAAC,GAAG,EAAE,CAAC;QACT,MAAM,IAAI,KAAK,CAAC,mBAAmB,CAAC,CAAA;IACtC,CAAC;IACD,GAAG,CAAC,IAAI,GAAG,GAAG,CAAC,IAAI,CAAC,OAAO,CAAC,OAAO,EAAE,GAAG,QAAQ,IAAI,CAAC,CAAA;IACrD,OAAO,GAAG,CAAC,WAAW,CAAC,IAAI,CAAC,CAAC,KAAK,CAAA;AACpC,CAAC"}

package/dist/model.d.ts

@@ -1,13 +1,12 @@
 import React from 'react';
-import { Instance, SnapshotIn } from 'mobx-state-tree';
+import { Instance } from 'mobx-state-tree';
 import { HierarchyNode } from 'd3-hierarchy';
+import { Theme } from '@mui/material';
 import { FileLocation as FileLocationType } from '@jbrowse/core/util/types';
 import { NodeWithIds, NodeWithIdsAndLength } from './util';
 import ClustalMSA from './parsers/ClustalMSA';
 import StockholmMSA from './parsers/StockholmMSA';
 import FastaMSA from './parsers/FastaMSA';
-import { StructureModel } from './StructureModel';
-import { Theme } from '@mui/material';
 export interface RowDetails {
     [key: string]: unknown;
     name: string;
@@ -46,22 +45,12 @@ export interface IBoxTrack {
     model: BoxTrackModel;
 }
 export type BasicTrack = IBoxTrack | ITextTrack;
-export type StructureSnap = SnapshotIn<typeof StructureModel>;
 export type DialogComponentType = React.LazyExoticComponent<React.FC<any>> | React.FC<any>;
 declare const model: import("mobx-state-tree").IModelType<{
     id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
     displayName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
     minimized: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
 } & {
-    id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
-    type: import("mobx-state-tree").ISimpleType<"MsaView">;
-    height: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
-    treeAreaWidth: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
-    treeWidth: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
-    treeWidthMatchesArea: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
-    rowHeight: import("mobx-state-tree").IType<number | undefined, number, number>;
-    scrollY: import("mobx-state-tree").IType<number | undefined, number, number>;
-    scrollX: import("mobx-state-tree").IType<number | undefined, number, number>;
     selectedStructures: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IModelType<{
         id: import("mobx-state-tree").ISimpleType<string>;
         structure: import("mobx-state-tree").IModelType<{
@@ -71,6 +60,16 @@ declare const model: import("mobx-state-tree").IModelType<{
         }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
         range: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
     }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
+} & {
+    id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
+    type: import("mobx-state-tree").ISimpleType<"MsaView">;
+    height: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
+    treeAreaWidth: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
+    treeWidth: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
+    treeWidthMatchesArea: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    rowHeight: import("mobx-state-tree").IType<number | undefined, number, number>;
+    scrollY: import("mobx-state-tree").IType<number | undefined, number, number>;
+    scrollX: import("mobx-state-tree").IType<number | undefined, number, number>;
     labelsAlignRight: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
     colWidth: import("mobx-state-tree").IType<number | undefined, number, number>;
     showBranchLen: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
@@ -81,16 +80,16 @@ declare const model: import("mobx-state-tree").IModelType<{
     colorSchemeName: import("mobx-state-tree").IType<string | undefined, string, string>;
     treeFilehandle: 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<{
         locationType: import("mobx-state-tree").ISimpleType<"UriLocation">;
-        uri: import("mobx-state-tree").ISimpleType<string>; /**
-         * #property
-         * draw clickable node bubbles on the tree
-         */
+        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").ISimpleType<string>>;
         internetAccountPreAuthorization: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IModelType<{
             internetAccountType: import("mobx-state-tree").ISimpleType<string>;
             authInfo: import("mobx-state-tree").IType<any, any, any>;
-        }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
+        }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>; /**
+         * #property
+         * filehandle object for the tree
+         */
     }>> | 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>;
@@ -103,11 +102,7 @@ declare const model: import("mobx-state-tree").IModelType<{
         uri: string;
         internetAccountId: string | undefined;
         internetAccountPreAuthorization: import("mobx-state-tree").ModelSnapshotType<{
-            internetAccountType: import("mobx-state-tree").ISimpleType<string>; /**
-             * #property
-             * a list of "tracks" to display, as box-like glyphs (e.g. protein
-             * domains)
-             */
+            internetAccountType: import("mobx-state-tree").ISimpleType<string>;
             authInfo: import("mobx-state-tree").IType<any, any, any>;
         }> | undefined;
     } | import("mobx-state-tree").ModelSnapshotType<{
@@ -122,7 +117,10 @@ declare const model: import("mobx-state-tree").IModelType<{
         name: import("mobx-state-tree").ISimpleType<string>;
         blobId: import("mobx-state-tree").ISimpleType<string>;
     }, {}> | import("mobx-state-tree").ModelInstanceType<{
-        locationType: import("mobx-state-tree").ISimpleType<"LocalPathLocation">;
+        locationType: import("mobx-state-tree").ISimpleType<"LocalPathLocation">; /**
+         * #volatile
+         * the currently mouse-hovered column
+         */
         localPath: import("mobx-state-tree").ISimpleType<string>;
     }, {}> | ({
         locationType: "UriLocation";
@@ -134,21 +132,24 @@ declare const model: import("mobx-state-tree").IModelType<{
         internetAccountId: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
         internetAccountPreAuthorization: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IModelType<{
             internetAccountType: import("mobx-state-tree").ISimpleType<string>;
+            /**
+             * #volatile
+             */
             authInfo: import("mobx-state-tree").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<{
         locationType: import("mobx-state-tree").ISimpleType<"UriLocation">;
-        uri: import("mobx-state-tree").ISimpleType<string>; /**
-         * #property
-         * draw clickable node bubbles on the tree
-         */
+        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").ISimpleType<string>>;
         internetAccountPreAuthorization: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IModelType<{
             internetAccountType: import("mobx-state-tree").ISimpleType<string>;
             authInfo: import("mobx-state-tree").IType<any, any, any>;
-        }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
+        }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>; /**
+         * #property
+         * filehandle object for the tree
+         */
     }>> | 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>;
@@ -161,11 +162,7 @@ declare const model: import("mobx-state-tree").IModelType<{
         uri: string;
         internetAccountId: string | undefined;
         internetAccountPreAuthorization: import("mobx-state-tree").ModelSnapshotType<{
-            internetAccountType: import("mobx-state-tree").ISimpleType<string>; /**
-             * #property
-             * a list of "tracks" to display, as box-like glyphs (e.g. protein
-             * domains)
-             */
+            internetAccountType: import("mobx-state-tree").ISimpleType<string>;
             authInfo: import("mobx-state-tree").IType<any, any, any>;
         }> | undefined;
     } | import("mobx-state-tree").ModelSnapshotType<{
@@ -180,7 +177,10 @@ declare const model: import("mobx-state-tree").IModelType<{
         name: import("mobx-state-tree").ISimpleType<string>;
         blobId: import("mobx-state-tree").ISimpleType<string>;
     }, {}> | import("mobx-state-tree").ModelInstanceType<{
-        locationType: import("mobx-state-tree").ISimpleType<"LocalPathLocation">;
+        locationType: import("mobx-state-tree").ISimpleType<"LocalPathLocation">; /**
+         * #volatile
+         * the currently mouse-hovered column
+         */
         localPath: import("mobx-state-tree").ISimpleType<string>;
     }, {}> | ({
         locationType: "UriLocation";
@@ -192,21 +192,24 @@ declare const model: import("mobx-state-tree").IModelType<{
         internetAccountId: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
         internetAccountPreAuthorization: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IModelType<{
             internetAccountType: import("mobx-state-tree").ISimpleType<string>;
+            /**
+             * #volatile
+             */
             authInfo: import("mobx-state-tree").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>>;
     treeMetadataFilehandle: 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<{
         locationType: import("mobx-state-tree").ISimpleType<"UriLocation">;
-        uri: import("mobx-state-tree").ISimpleType<string>; /**
-         * #property
-         * draw clickable node bubbles on the tree
-         */
+        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").ISimpleType<string>>;
         internetAccountPreAuthorization: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IModelType<{
             internetAccountType: import("mobx-state-tree").ISimpleType<string>;
             authInfo: import("mobx-state-tree").IType<any, any, any>;
-        }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
+        }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>; /**
+         * #property
+         * filehandle object for the tree
+         */
     }>> | 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>;
@@ -219,11 +222,7 @@ declare const model: import("mobx-state-tree").IModelType<{
         uri: string;
         internetAccountId: string | undefined;
         internetAccountPreAuthorization: import("mobx-state-tree").ModelSnapshotType<{
-            internetAccountType: import("mobx-state-tree").ISimpleType<string>; /**
-             * #property
-             * a list of "tracks" to display, as box-like glyphs (e.g. protein
-             * domains)
-             */
+            internetAccountType: import("mobx-state-tree").ISimpleType<string>;
             authInfo: import("mobx-state-tree").IType<any, any, any>;
         }> | undefined;
     } | import("mobx-state-tree").ModelSnapshotType<{
@@ -238,7 +237,10 @@ declare const model: import("mobx-state-tree").IModelType<{
         name: import("mobx-state-tree").ISimpleType<string>;
         blobId: import("mobx-state-tree").ISimpleType<string>;
     }, {}> | import("mobx-state-tree").ModelInstanceType<{
-        locationType: import("mobx-state-tree").ISimpleType<"LocalPathLocation">;
+        locationType: import("mobx-state-tree").ISimpleType<"LocalPathLocation">; /**
+         * #volatile
+         * the currently mouse-hovered column
+         */
         localPath: import("mobx-state-tree").ISimpleType<string>;
     }, {}> | ({
         locationType: "UriLocation";
@@ -250,12 +252,15 @@ declare const model: import("mobx-state-tree").IModelType<{
         internetAccountId: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
         internetAccountPreAuthorization: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IModelType<{
             internetAccountType: import("mobx-state-tree").ISimpleType<string>;
+            /**
+             * #volatile
+             */
             authInfo: import("mobx-state-tree").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>>;
     currentAlignment: import("mobx-state-tree").IType<number | undefined, number, number>;
     collapsed: import("mobx-state-tree").IArrayType<import("mobx-state-tree").ISimpleType<string>>;
-    hidden: import("mobx-state-tree").IArrayType<import("mobx-state-tree").ISimpleType<string>>;
+    collapsed2: import("mobx-state-tree").IArrayType<import("mobx-state-tree").ISimpleType<string>>;
     showOnly: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
     boxTracks: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IModelType<{
         id: import("mobx-state-tree").ISimpleType<string>;
@@ -290,9 +295,9 @@ declare const model: import("mobx-state-tree").IModelType<{
         msa: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
         treeMetadata: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
     }, {
-        setTree(tree?: string): void;
-        setMSA(msa?: string): void;
-        setTreeMetadata(treeMetadata?: string): void;
+        setTree(tree?: string | undefined): void;
+        setMSA(msa?: string | undefined): void;
+        setTreeMetadata(treeMetadata?: string | undefined): void;
     }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>, [undefined]>;
 }, {
     width: number;
@@ -310,6 +315,34 @@ declare const model: import("mobx-state-tree").IModelType<{
 } & {
     removeActiveDialog(): void;
     queueDialog(cb: (doneCallback: () => void) => [import("@jbrowse/core/util").DialogComponentType, unknown]): void;
+} & {
+    addStructureToSelection(elt: import("mobx-state-tree").ModelCreationType<import("mobx-state-tree/dist/internal").ExtractCFromProps<{
+        id: import("mobx-state-tree").ISimpleType<string>;
+        structure: import("mobx-state-tree").IModelType<{
+            pdb: import("mobx-state-tree").ISimpleType<string>;
+            startPos: import("mobx-state-tree").ISimpleType<number>;
+            endPos: import("mobx-state-tree").ISimpleType<number>;
+        }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
+        range: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
+    }>>): void;
+    removeStructureFromSelection(elt: import("mobx-state-tree").ModelCreationType<import("mobx-state-tree/dist/internal").ExtractCFromProps<{
+        id: import("mobx-state-tree").ISimpleType<string>;
+        structure: import("mobx-state-tree").IModelType<{
+            pdb: import("mobx-state-tree").ISimpleType<string>;
+            startPos: import("mobx-state-tree").ISimpleType<number>;
+            endPos: import("mobx-state-tree").ISimpleType<number>;
+        }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
+        range: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
+    }>>): void;
+    toggleStructureSelection(elt: {
+        id: string;
+        structure: {
+            startPos: number;
+            endPos: number;
+            pdb: string;
+        };
+    }): void;
+    clearSelectedStructures(): void;
 } & {
     /**
      * #volatile
@@ -331,6 +364,16 @@ declare const model: import("mobx-state-tree").IModelType<{
      * the currently mouse-hovered column
      */
     mouseCol: number | undefined;
+    /**
+     * #volatile
+     * the currently mouse-click row
+     */
+    mouseClickRow: number | undefined;
+    /**
+     * #volatile
+     * the currently mouse-click column
+     */
+    mouseClickCol: number | undefined;
     /**
      * #volatile
      * a dummy variable that is incremented when ref changes so autorun for
@@ -341,6 +384,10 @@ declare const model: import("mobx-state-tree").IModelType<{
      * #volatile
      */
     minimapHeight: number;
+    /**
+     * #volatile
+     */
+    marginLeft: number;
     /**
      * #volatile
      */
@@ -358,33 +405,6 @@ declare const model: import("mobx-state-tree").IModelType<{
      * set the height of the view in px
      */
     setHeight(height: number): void;
-    /**
-     * #action
-     * add to the selected structures
-     */
-    addStructureToSelection(elt: StructureSnap): void;
-    /**
-     * #action
-     * remove from the selected structures
-     */
-    removeStructureFromSelection(elt: StructureSnap): void;
-    /**
-     * #action
-     * toggle a structure from the selected structures list
-     */
-    toggleStructureSelection(elt: {
-        id: string;
-        structure: {
-            startPos: number;
-            endPos: number;
-            pdb: string;
-        };
-    }): void;
-    /**
-     * #action
-     * clear all selected structures
-     */
-    clearSelectedStructures(): void;
     /**
      * #action
      * set error state
@@ -395,6 +415,11 @@ declare const model: import("mobx-state-tree").IModelType<{
      * set mouse position (row, column) in the MSA
      */
     setMousePos(col?: number, row?: number): void;
+    /**
+     * #action
+     * set mouse click position (row, column) in the MSA
+     */
+    setMouseClickPos(col?: number, row?: number): void;
     /**
      * #action
      * set row height (px)
@@ -446,15 +471,11 @@ declare const model: import("mobx-state-tree").IModelType<{
     /**
      * #action
      */
-    hideNode(arg: string): void;
-    /**
-     * #action
-     */
-    clearHidden(): void;
+    toggleCollapsed(node: string): void;
     /**
      * #action
      */
-    toggleCollapsed(node: string): void;
+    toggleCollapsed2(node: string): void;
     /**
      * #action
      */
@@ -586,6 +607,10 @@ declare const model: import("mobx-state-tree").IModelType<{
      * widget width minus the tree area gives the space for the MSA
      */
     readonly msaAreaWidth: number;
+    /**
+     * #getter
+     */
+    readonly treeAreaWidthMinusMargin: number;
     /**
      * #getter
      */
@@ -761,6 +786,15 @@ declare const model: import("mobx-state-tree").IModelType<{
     afterCreate(): void;
 }, import("mobx-state-tree")._NotCustomized, {
     id: string;
+    selectedStructures: import("mobx-state-tree").ModelSnapshotType<{
+        id: import("mobx-state-tree").ISimpleType<string>;
+        structure: import("mobx-state-tree").IModelType<{
+            pdb: import("mobx-state-tree").ISimpleType<string>;
+            startPos: import("mobx-state-tree").ISimpleType<number>;
+            endPos: import("mobx-state-tree").ISimpleType<number>;
+        }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
+        range: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
+    }>[];
     type: "MsaView";
     height: number;
     treeWidthMatchesArea: boolean;
@@ -778,25 +812,12 @@ declare const model: import("mobx-state-tree").IModelType<{
     currentAlignment: number;
     treeAreaWidth: number;
     treeWidth: number;
-    selectedStructures: import("mobx-state-tree").ModelSnapshotType<{
-        id: import("mobx-state-tree").ISimpleType<string>;
-        structure: import("mobx-state-tree").IModelType<{
-            pdb: import("mobx-state-tree").ISimpleType<string>;
-            startPos: import("mobx-state-tree").ISimpleType<number>;
-            endPos: import("mobx-state-tree").ISimpleType<number>;
-        }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
-        range: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
-    }>[];
     treeFilehandle: {
         locationType: "UriLocation";
         uri: string;
         internetAccountId: string | undefined;
         internetAccountPreAuthorization: import("mobx-state-tree").ModelSnapshotType<{
-            internetAccountType: import("mobx-state-tree").ISimpleType<string>; /**
-             * #property
-             * a list of "tracks" to display, as box-like glyphs (e.g. protein
-             * domains)
-             */
+            internetAccountType: import("mobx-state-tree").ISimpleType<string>;
             authInfo: import("mobx-state-tree").IType<any, any, any>;
         }> | undefined;
     } | import("mobx-state-tree").ModelSnapshotType<{
@@ -812,11 +833,7 @@ declare const model: import("mobx-state-tree").IModelType<{
         uri: string;
         internetAccountId: string | undefined;
         internetAccountPreAuthorization: import("mobx-state-tree").ModelSnapshotType<{
-            internetAccountType: import("mobx-state-tree").ISimpleType<string>; /**
-             * #property
-             * a list of "tracks" to display, as box-like glyphs (e.g. protein
-             * domains)
-             */
+            internetAccountType: import("mobx-state-tree").ISimpleType<string>;
             authInfo: import("mobx-state-tree").IType<any, any, any>;
         }> | undefined;
     } | import("mobx-state-tree").ModelSnapshotType<{
@@ -832,11 +849,7 @@ declare const model: import("mobx-state-tree").IModelType<{
         uri: string;
         internetAccountId: string | undefined;
         internetAccountPreAuthorization: import("mobx-state-tree").ModelSnapshotType<{
-            internetAccountType: import("mobx-state-tree").ISimpleType<string>; /**
-             * #property
-             * a list of "tracks" to display, as box-like glyphs (e.g. protein
-             * domains)
-             */
+            internetAccountType: import("mobx-state-tree").ISimpleType<string>;
             authInfo: import("mobx-state-tree").IType<any, any, any>;
         }> | undefined;
     } | import("mobx-state-tree").ModelSnapshotType<{
@@ -848,7 +861,7 @@ declare const model: import("mobx-state-tree").IModelType<{
         localPath: import("mobx-state-tree").ISimpleType<string>;
     }> | undefined;
     collapsed: string[];
-    hidden: string[];
+    collapsed2: string[];
     showOnly: string | undefined;
     boxTracks: import("mobx-state-tree").ModelSnapshotType<{
         id: import("mobx-state-tree").ISimpleType<string>;