react-msaview 3.1.12 → 3.2.1

package/dist/colorSchemes.d.ts

@@ -2,9 +2,9 @@ declare const _default: {
     [k: string]: Record<string, string>;
 };
 export default _default;
-export declare function getClustalXColor(stats: Record<string, number>, model: {
+export declare function getClustalXColor(stats: Record<string, number>, total: number, model: {
     columns: Record<string, string>;
 }, row: string, col: number): "rgb(128,179,230)" | "#d88" | "rgb(192, 72, 192)" | "rgb(204, 77, 204)" | "#8f8" | "rgb(26,204,26)" | "rgb(240, 128, 128)" | "rgb(240, 144, 72)" | "rgb(204, 204, 0)" | "rgb(26, 179, 179)" | undefined;
-export declare function getPercentIdentityColor(stats: Record<string, number>, model: {
+export declare function getPercentIdentityColor(stats: Record<string, number>, total: number, model: {
     columns: Record<string, string>;
 }, row: string, col: number): string | undefined;

package/dist/colorSchemes.js

@@ -3,6 +3,7 @@ import namesPlugin from 'colord/plugins/names';
 import { transform } from './util';
 extend([namesPlugin]);
 const colorSchemes = {
+    none: {},
     clustal: {
         G: 'orange',
         P: 'orange',
@@ -334,8 +335,7 @@ export default transform(colorSchemes, ([key, val]) => [
 // reference to clustalX source code scheme modifies what the jalview.org
 // scheme says there the jalview.org colorscheme says WLVIMAFCHP but it
 // should be WLVIMAFCHPY, colprot.xml says e.g. %#ACFHILMVWYPp" which has Y
-export function getClustalXColor(stats, model, row, col) {
-    const total = Object.values(stats).reduce((a, b) => a + b, 0);
+export function getClustalXColor(stats, total, model, row, col) {
     const l = model.columns[row][col];
     const { W = 0, L = 0, V = 0, I = 0, M = 0, A = 0, F = 0, C = 0, H = 0, P = 0, R = 0, K = 0, Q = 0, E = 0, D = 0, T = 0, S = 0, G = 0, Y = 0, N = 0, } = stats;
     const WLVIMAFCHP = W + L + V + I + M + A + F + C + H + P + Y;
@@ -427,10 +427,9 @@ export function getClustalXColor(stats, model, row, col) {
 // info http://www.jalview.org/help/html/colourSchemes/clustal.html
 // modifications:
 // reference to clustalX source code scheme modifies what the jalview.org
-// scheme says there the jalview.org colorscheme says WLVIMAFCHP but it
-// should be WLVIMAFCHPY, colprot.xml says e.g. %#ACFHILMVWYPp" which has Y
-export function getPercentIdentityColor(stats, model, row, col) {
-    const total = Object.values(stats).reduce((a, b) => a + b, 0);
+// scheme says there the jalview.org colorscheme says WLVIMAFCHP but it should
+// be WLVIMAFCHPY, colprot.xml says e.g. %#ACFHILMVWYPp" which has Y
+export function getPercentIdentityColor(stats, total, model, row, col) {
     const l = model.columns[row][col];
     const entries = Object.entries(stats);
     let ent = 0;

package/dist/colorSchemes.js.map

@@ -1 +1 @@
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package/dist/components/Loading.d.ts

@@ -1,5 +1,5 @@
 import React from 'react';
-import { MsaViewModel } from '../model';
+import type { MsaViewModel } from '../model';
 declare const Loading: ({ model }: {
     model: MsaViewModel;
 }) => React.JSX.Element;

package/dist/components/Loading.js

@@ -6,15 +6,17 @@ import { ErrorMessage } from '@jbrowse/core/ui';
 // locals
 import ImportForm from './import/ImportForm';
 import MSAView from './MSAView';
-function Reset({ model, error }) {
+const Reset = observer(function ({ model, error, }) {
     return (React.createElement("div", null,
         React.createElement(ErrorMessage, { error: error }),
-        React.createElement(Button, { variant: "contained", color: "primary", onClick: () => model.reset() }, "Return to import form")));
-}
+        React.createElement(Button, { variant: "contained", color: "primary", onClick: () => {
+                model.reset();
+            } }, "Return to import form")));
+});
 const Loading = observer(function ({ model }) {
-    const { isLoading, initialized } = model;
+    const { isLoading, dataInitialized } = model;
     return (React.createElement("div", null,
-        React.createElement(ErrorBoundary, { fallbackRender: props => React.createElement(Reset, { model: model, error: props.error }) }, initialized ? (isLoading ? (React.createElement(Typography, { variant: "h4" }, "Loading...")) : (React.createElement(MSAView, { model: model }))) : (React.createElement(ImportForm, { model: model })))));
+        React.createElement(ErrorBoundary, { fallbackRender: props => React.createElement(Reset, { model: model, error: props.error }) }, dataInitialized ? (isLoading ? (React.createElement(Typography, { variant: "h4" }, "Loading...")) : (React.createElement(MSAView, { model: model }))) : (React.createElement(ImportForm, { model: model })))));
 });
 export default Loading;
 //# sourceMappingURL=Loading.js.map

package/dist/components/Loading.js.map

@@ -1 +1 @@
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package/dist/components/MSAView.d.ts

@@ -1,5 +1,5 @@
 import React from 'react';
-import { MsaViewModel } from '../model';
+import type { MsaViewModel } from '../model';
 declare const MSAView: ({ model }: {
     model: MsaViewModel;
 }) => React.JSX.Element;

package/dist/components/MSAView.js

@@ -7,31 +7,35 @@ import Header from './header/Header';
 import MSAPanel from './msa/MSAPanel';
 import TreePanel from './tree/TreePanel';
 import Minimap from './minimap/Minimap';
-function TopArea({ model }) {
+import VerticalScrollbar from './VerticalScrollbar';
+const TopArea = observer(function ({ model }) {
+    const { showHorizontalScrollbar } = model;
     return (React.createElement("div", { style: { display: 'flex' } },
         React.createElement(TreeRuler, { model: model }),
-        React.createElement(Minimap, { model: model })));
-}
-function MainArea({ model }) {
+        showHorizontalScrollbar ? React.createElement(Minimap, { model: model }) : null));
+});
+const MainArea = observer(function ({ model }) {
+    const { showVerticalScrollbar } = model;
     return (React.createElement("div", { style: { display: 'flex' } },
         React.createElement(TreePanel, { model: model }),
         React.createElement(VerticalResizeHandle, { model: model }),
-        React.createElement(MSAPanel, { model: model })));
-}
+        React.createElement(MSAPanel, { model: model }),
+        showVerticalScrollbar ? React.createElement(VerticalScrollbar, { model: model }) : null));
+});
 const View = observer(function ({ model }) {
     return (React.createElement("div", { style: { position: 'relative' } },
         React.createElement(TopArea, { model: model }),
         React.createElement(MainArea, { model: model })));
 });
 const MSAView = observer(function ({ model }) {
-    const { height, DialogComponent, DialogProps } = model;
-    return (React.createElement("div", null,
+    const { height, viewInitialized, DialogComponent, DialogProps } = model;
+    return (React.createElement("div", null, viewInitialized ? (React.createElement(React.Fragment, null,
         React.createElement("div", { style: { height, overflow: 'hidden' } },
             React.createElement(Header, { model: model }),
             React.createElement(View, { model: model })),
         React.createElement(HorizontalResizeHandle, { model: model }),
         DialogComponent ? (React.createElement(Suspense, { fallback: null },
-            React.createElement(DialogComponent, { ...DialogProps }))) : null));
+            React.createElement(DialogComponent, { ...DialogProps }))) : null)) : null));
 });
 export default MSAView;
 //# sourceMappingURL=MSAView.js.map

package/dist/components/MSAView.js.map

@@ -1 +1 @@
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package/dist/components/ResizeHandles.d.ts

@@ -1,5 +1,5 @@
 import React from 'react';
-import { MsaViewModel } from '../model';
+import type { MsaViewModel } from '../model';
 export declare const VerticalResizeHandle: ({ model, }: {
     model: MsaViewModel;
 }) => React.JSX.Element;

package/dist/components/ResizeHandles.js

@@ -45,11 +45,13 @@ export const VerticalResizeHandle = observer(function ({ model, }) {
         return () => { };
     }, [mouseDragging, model]);
     return (React.createElement("div", null,
-        React.createElement("div", { onMouseDown: () => setMouseDragging(true), style: {
+        React.createElement("div", { onMouseDown: () => {
+                setMouseDragging(true);
+            }, style: {
                 cursor: 'ew-resize',
                 height: '100%',
                 width: resizeHandleWidth,
-                background: `rgba(200,200,200)`,
+                background: 'rgba(200,200,200)',
                 position: 'relative',
             } })));
 });
@@ -98,11 +100,13 @@ export const HorizontalResizeHandle = observer(function ({ model, }) {
         return () => { };
     }, [mouseDragging, model]);
     return (React.createElement("div", null,
-        React.createElement("div", { onMouseDown: () => setMouseDragging(true), style: {
+        React.createElement("div", { onMouseDown: () => {
+                setMouseDragging(true);
+            }, style: {
                 cursor: 'ns-resize',
                 width: '100%',
                 height: resizeHandleWidth,
-                background: `rgba(200,200,200)`,
+                background: 'rgba(200,200,200)',
                 position: 'relative',
             } })));
 });

package/dist/components/ResizeHandles.js.map

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

@@ -29,10 +29,16 @@ export default function SequenceTextArea({ str }) {
         React.createElement(Button, { color: "primary", variant: "contained", onClick: () => {
                 copy(disp);
                 setCopied(true);
-                setTimeout(() => setCopied(false), 500);
+                setTimeout(() => {
+                    setCopied(false);
+                }, 500);
             } }, copied ? 'Copied!' : 'Copy to clipboard'),
-        React.createElement(Checkbox2, { label: "Show gaps", checked: showGaps, onChange: () => setShowGaps(!showGaps) }),
-        React.createElement(Checkbox2, { label: "Show empty", checked: showEmpty, onChange: () => setShowEmpty(!showEmpty) }),
+        React.createElement(Checkbox2, { label: "Show gaps", checked: showGaps, onChange: () => {
+                setShowGaps(!showGaps);
+            } }),
+        React.createElement(Checkbox2, { label: "Show empty", checked: showEmpty, onChange: () => {
+                setShowEmpty(!showEmpty);
+            } }),
         React.createElement(TextField, { variant: "outlined", multiline: true, className: classes.dialogContent, minRows: 5, maxRows: 10, fullWidth: true, value: disp, InputProps: {
                 readOnly: true,
                 classes: {

package/dist/components/SequenceTextArea.js.map

@@ -1 +1 @@
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+{"version":3,"file":"SequenceTextArea.js","sourceRoot":"","sources":["../../src/components/SequenceTextArea.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,QAAQ,EAAE,MAAM,OAAO,CAAA;AACvC,OAAO,EAAE,MAAM,EAAE,SAAS,EAAE,MAAM,eAAe,CAAA;AACjD,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAC1C,OAAO,IAAI,MAAM,mBAAmB,CAAA;AAEpC,SAAS;AACT,OAAO,SAAS,MAAM,aAAa,CAAA;AAEnC,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC;IAC7B,YAAY,EAAE;QACZ,UAAU,EAAE,aAAa;QACzB,QAAQ,EAAE,YAAY;KACvB;IACD,aAAa,EAAE;QACb,UAAU,EAAE,WAAW;QACvB,MAAM,EAAE,CAAC;QACT,QAAQ,EAAE,MAAM;KACjB;CACF,CAAC,CAAA;AAEF,MAAM,CAAC,OAAO,UAAU,gBAAgB,CAAC,EAAE,GAAG,EAA+B;IAC3E,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,CAAC,MAAM,EAAE,SAAS,CAAC,GAAG,QAAQ,CAAC,KAAK,CAAC,CAAA;IAC3C,MAAM,CAAC,QAAQ,EAAE,WAAW,CAAC,GAAG,QAAQ,CAAC,KAAK,CAAC,CAAA;IAC/C,MAAM,CAAC,SAAS,EAAE,YAAY,CAAC,GAAG,QAAQ,CAAC,KAAK,CAAC,CAAA;IAEjD,MAAM,IAAI,GAAG,GAAG;SACb,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,EAAE,EAAE,QAAQ,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC,UAAU,CAAC,GAAG,EAAE,EAAE,CAAC,CAAU,CAAC;SACxE,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC;SACxC,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,EAAE,CAAC,EAAE,EAAE,CAAC,IAAI,EAAE,KAAK,QAAQ,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC,UAAU,CAAC,GAAG,EAAE,EAAE,CAAC,EAAE,CAAC;SACtE,IAAI,CAAC,IAAI,CAAC,CAAA;IACb,OAAO,CACL;QACE,oBAAC,MAAM,IACL,KAAK,EAAC,SAAS,EACf,OAAO,EAAC,WAAW,EACnB,OAAO,EAAE,GAAG,EAAE;gBACZ,IAAI,CAAC,IAAI,CAAC,CAAA;gBACV,SAAS,CAAC,IAAI,CAAC,CAAA;gBACf,UAAU,CAAC,GAAG,EAAE;oBACd,SAAS,CAAC,KAAK,CAAC,CAAA;gBAClB,CAAC,EAAE,GAAG,CAAC,CAAA;YACT,CAAC,IAEA,MAAM,CAAC,CAAC,CAAC,SAAS,CAAC,CAAC,CAAC,mBAAmB,CAClC;QACT,oBAAC,SAAS,IACR,KAAK,EAAC,WAAW,EACjB,OAAO,EAAE,QAAQ,EACjB,QAAQ,EAAE,GAAG,EAAE;gBACb,WAAW,CAAC,CAAC,QAAQ,CAAC,CAAA;YACxB,CAAC,GACD;QACF,oBAAC,SAAS,IACR,KAAK,EAAC,YAAY,EAClB,OAAO,EAAE,SAAS,EAClB,QAAQ,EAAE,GAAG,EAAE;gBACb,YAAY,CAAC,CAAC,SAAS,CAAC,CAAA;YAC1B,CAAC,GACD;QACF,oBAAC,SAAS,IACR,OAAO,EAAC,UAAU,EAClB,SAAS,QACT,SAAS,EAAE,OAAO,CAAC,aAAa,EAChC,OAAO,EAAE,CAAC,EACV,OAAO,EAAE,EAAE,EACX,SAAS,QACT,KAAK,EAAE,IAAI,EACX,UAAU,EAAE;gBACV,QAAQ,EAAE,IAAI;gBACd,OAAO,EAAE;oBACP,KAAK,EAAE,OAAO,CAAC,YAAY;iBAC5B;aACF,GACD,CACD,CACJ,CAAA;AACH,CAAC"}

package/dist/components/TextTrack.d.ts

@@ -1,5 +1,5 @@
 import React from 'react';
-import { MsaViewModel, ITextTrack } from '../model';
+import type { MsaViewModel, ITextTrack } from '../model';
 declare const AnnotationTrack: ({ track, model, }: {
     track: ITextTrack;
     model: MsaViewModel;

package/dist/components/TextTrack.js

@@ -26,7 +26,7 @@ const AnnotationBlock = observer(function ({ track, model, offsetX, }) {
         ctx.font = ctx.font.replace(/\d+px/, `${fontSize}px`);
         const xStart = Math.max(0, Math.floor(offsetX / colWidth));
         const xEnd = Math.max(0, Math.ceil((offsetX + blockSize) / colWidth));
-        const str = data?.slice(xStart, xEnd);
+        const str = data.slice(xStart, xEnd);
         for (let i = 0; str && i < str.length; i++) {
             const letter = str[i];
             const color = colorScheme[letter.toUpperCase()];

package/dist/components/TextTrack.js.map

@@ -1 +1 @@
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+{"version":3,"file":"TextTrack.js","sourceRoot":"","sources":["../../src/components/TextTrack.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,MAAM,EAAE,OAAO,EAAE,SAAS,EAAE,MAAM,OAAO,CAAA;AACzD,OAAO,EAAE,QAAQ,EAAE,MAAM,eAAe,CAAA;AACxC,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAGrC,OAAO,EAAE,aAAa,EAAE,MAAM,SAAS,CAAA;AAEvC,MAAM,eAAe,GAAG,QAAQ,CAAC,UAAU,EACzC,KAAK,EACL,KAAK,EACL,OAAO,GAKR;IACC,MAAM,EACJ,SAAS,EACT,OAAO,EACP,OAAO,EACP,WAAW,EAAE,gBAAgB,EAC7B,QAAQ,EACR,QAAQ,EACR,SAAS,EACT,kBAAkB,GACnB,GAAG,KAAK,CAAA;IACT,MAAM,EACJ,KAAK,EAAE,EAAE,iBAAiB,EAAE,IAAI,EAAE,GACnC,GAAG,KAAK,CAAA;IAET,MAAM,WAAW,GAAG,iBAAiB,IAAI,gBAAgB,CAAA;IACzD,MAAM,KAAK,GAAG,QAAQ,EAAE,CAAA;IACxB,MAAM,GAAG,GAAG,MAAM,CAAoB,IAAI,CAAC,CAAA;IAC3C,MAAM,cAAc,GAAG,OAAO,CAC5B,GAAG,EAAE,CAAC,aAAa,CAAC,WAAW,EAAE,KAAK,CAAC,EACvC,CAAC,WAAW,EAAE,KAAK,CAAC,CACrB,CAAA;IACD,SAAS,CAAC,GAAG,EAAE;QACb,IAAI,CAAC,GAAG,CAAC,OAAO,EAAE,CAAC;YACjB,OAAM;QACR,CAAC;QAED,MAAM,GAAG,GAAG,GAAG,CAAC,OAAO,CAAC,UAAU,CAAC,IAAI,CAAC,CAAA;QACxC,IAAI,CAAC,GAAG,EAAE,CAAC;YACT,OAAM;QACR,CAAC;QAED,0CAA0C;QAC1C,GAAG,CAAC,cAAc,EAAE,CAAA;QACpB,GAAG,CAAC,KAAK,CAAC,kBAAkB,EAAE,kBAAkB,CAAC,CAAA;QACjD,GAAG,CAAC,SAAS,CAAC,CAAC,EAAE,CAAC,EAAE,SAAS,EAAE,SAAS,CAAC,CAAA;QACzC,GAAG,CAAC,SAAS,CAAC,CAAC,OAAO,EAAE,CAAC,CAAC,CAAA;QAC1B,GAAG,CAAC,SAAS,GAAG,QAAQ,CAAA;QACxB,GAAG,CAAC,IAAI,GAAG,GAAG,CAAC,IAAI,CAAC,OAAO,CAAC,OAAO,EAAE,GAAG,QAAQ,IAAI,CAAC,CAAA;QAErD,MAAM,MAAM,GAAG,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,IAAI,CAAC,KAAK,CAAC,OAAO,GAAG,QAAQ,CAAC,CAAC,CAAA;QAC1D,MAAM,IAAI,GAAG,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,IAAI,CAAC,IAAI,CAAC,CAAC,OAAO,GAAG,SAAS,CAAC,GAAG,QAAQ,CAAC,CAAC,CAAA;QACrE,MAAM,GAAG,GAAG,IAAI,CAAC,KAAK,CAAC,MAAM,EAAE,IAAI,CAAC,CAAA;QACpC,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,GAAG,IAAI,CAAC,GAAG,GAAG,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE,CAAC;YAC3C,MAAM,MAAM,GAAG,GAAG,CAAC,CAAC,CAAE,CAAA;YACtB,MAAM,KAAK,GAAG,WAAW,CAAC,MAAM,CAAC,WAAW,EAAE,CAAC,CAAA;YAC/C,IAAI,OAAO,EAAE,CAAC;gBACZ,MAAM,CAAC,GAAG,CAAC,GAAG,QAAQ,GAAG,OAAO,GAAG,CAAC,OAAO,GAAG,QAAQ,CAAC,CAAA;gBACvD,GAAG,CAAC,SAAS,GAAG,KAAK,IAAI,OAAO,CAAA;gBAChC,GAAG,CAAC,QAAQ,CAAC,CAAC,EAAE,CAAC,EAAE,QAAQ,EAAE,SAAS,CAAC,CAAA;gBACvC,IAAI,SAAS,IAAI,EAAE,IAAI,QAAQ,IAAI,SAAS,GAAG,CAAC,EAAE,CAAC;oBACjD,GAAG,CAAC,SAAS,GAAG,cAAc,CAAC,MAAM,CAAC,WAAW,EAAE,CAAC,IAAI,OAAO,CAAA;oBAC/D,GAAG,CAAC,QAAQ,CAAC,MAAM,EAAE,CAAC,GAAG,QAAQ,GAAG,CAAC,EAAE,SAAS,GAAG,CAAC,GAAG,CAAC,CAAC,CAAA,CAAC,kCAAkC;gBAC9F,CAAC;YACH,CAAC;QACH,CAAC;IACH,CAAC,EAAE;QACD,QAAQ;QACR,OAAO;QACP,SAAS;QACT,QAAQ;QACR,SAAS;QACT,OAAO;QACP,cAAc;QACd,WAAW;QACX,kBAAkB;QAClB,IAAI;KACL,CAAC,CAAA;IACF,OAAO,CACL,gCACE,GAAG,EAAE,GAAG,EACR,MAAM,EAAE,SAAS,GAAG,kBAAkB,EACtC,KAAK,EAAE,SAAS,GAAG,kBAAkB,EACrC,KAAK,EAAE;YACL,QAAQ,EAAE,UAAU;YACpB,IAAI,EAAE,OAAO,GAAG,OAAO;YACvB,KAAK,EAAE,SAAS;YAChB,MAAM,EAAE,SAAS;SAClB,GACD,CACH,CAAA;AACH,CAAC,CAAC,CAAA;AACF,MAAM,eAAe,GAAG,QAAQ,CAAC,UAAU,EACzC,KAAK,EACL,KAAK,GAIN;IACC,MAAM,EAAE,OAAO,EAAE,YAAY,EAAE,SAAS,EAAE,GAAG,KAAK,CAAA;IAClD,OAAO,CACL,6BACE,KAAK,EAAE;YACL,QAAQ,EAAE,UAAU;YACpB,MAAM,EAAE,SAAS;YACjB,KAAK,EAAE,YAAY;YACnB,QAAQ,EAAE,QAAQ;SACnB,IAEA,OAAO,CAAC,GAAG,CAAC,EAAE,CAAC,EAAE,CAAC,CACjB,oBAAC,eAAe,IAAC,GAAG,EAAE,EAAE,EAAE,KAAK,EAAE,KAAK,EAAE,KAAK,EAAE,KAAK,EAAE,OAAO,EAAE,EAAE,GAAI,CACtE,CAAC,CACE,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,eAAe,eAAe,CAAA"}

package/dist/components/Track.d.ts

@@ -1,5 +1,5 @@
 import React from 'react';
-import { MsaViewModel } from '../model';
+import type { MsaViewModel } from '../model';
 export declare const TrackLabel: ({ model, track, }: {
     model: MsaViewModel;
     track: any;

package/dist/components/Track.js

@@ -30,9 +30,13 @@ export const TrackLabel = observer(function ({ model, track, }) {
         React.createElement(IconButton, { className: classes.button, style: {
                 width: trackLabelHeight,
                 height: trackLabelHeight,
-            }, onClick: event => setAnchorEl(event.currentTarget) },
+            }, onClick: event => {
+                setAnchorEl(event.currentTarget);
+            } },
             React.createElement(ArrowDropDownIcon, null)),
-        anchorEl ? (React.createElement(Menu, { anchorEl: anchorEl, transitionDuration: 0, open: true, onClose: () => setAnchorEl(undefined) },
+        anchorEl ? (React.createElement(Menu, { anchorEl: anchorEl, transitionDuration: 0, open: true, onClose: () => {
+                setAnchorEl(undefined);
+            } },
             React.createElement(MenuItem, { dense: true, onClick: () => {
                     model.toggleTrack(track.model.id);
                     setAnchorEl(undefined);

package/dist/components/Track.js.map

@@ -1 +1 @@
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package/dist/components/VerticalScrollbar.d.ts

@@ -0,0 +1,6 @@
+import React from 'react';
+import type { MsaViewModel } from '../model';
+declare const VerticalScrollbar: ({ model }: {
+    model: MsaViewModel;
+}) => React.JSX.Element;
+export default VerticalScrollbar;

package/dist/components/VerticalScrollbar.js

@@ -0,0 +1,69 @@
+import { observer } from 'mobx-react';
+import React, { useEffect, useRef, useState } from 'react';
+import { clamp } from '../util';
+const VerticalScrollbar = observer(({ model }) => {
+    const { msaAreaHeight, scrollY, totalHeight } = model;
+    const [hovered, setHovered] = useState(false);
+    const scheduled = useRef(false);
+    const [mouseDown, setMouseDown] = useState();
+    const fill = 'rgba(66, 119, 127, 0.3)';
+    const unit = msaAreaHeight / totalHeight;
+    const top = -scrollY;
+    const bottom = top + msaAreaHeight;
+    const t = top * unit;
+    const b = bottom * unit;
+    useEffect(() => {
+        function fn(event) {
+            if (mouseDown !== undefined) {
+                if (!scheduled.current) {
+                    scheduled.current = true;
+                    window.requestAnimationFrame(() => {
+                        model.setScrollY(clamp(-totalHeight, mouseDown.scrollY - (event.clientY - mouseDown.clientY) / unit, 0));
+                        scheduled.current = false;
+                    });
+                }
+            }
+        }
+        function fn2() {
+            setMouseDown(undefined);
+        }
+        if (mouseDown !== undefined) {
+            document.addEventListener('mousemove', fn);
+            document.addEventListener('mouseup', fn2);
+            return () => {
+                document.removeEventListener('mousemove', fn);
+                document.removeEventListener('mousemove', fn2);
+            };
+        }
+    }, [model, unit, totalHeight, mouseDown]);
+    return (React.createElement("div", { style: {
+            position: 'relative',
+            width: 20,
+            height: msaAreaHeight,
+            borderLeft: '1px solid #555',
+            borderTop: '1px solid #555',
+            boxSizing: 'border-box',
+        } },
+        React.createElement("div", { style: {
+                position: 'absolute',
+                top: Math.max(0, t),
+                left: 0,
+                background: hovered ? 'rgba(66,119,127,0.6)' : fill,
+                cursor: 'pointer',
+                boxSizing: 'border-box',
+                width: 20,
+                height: Math.max(b - t, 20),
+                zIndex: 100,
+            }, onMouseOver: () => {
+                setHovered(true);
+            }, onMouseOut: () => {
+                setHovered(false);
+            }, onMouseDown: event => {
+                setMouseDown({
+                    clientY: event.clientY,
+                    scrollY: model.scrollY,
+                });
+            } })));
+});
+export default VerticalScrollbar;
+//# sourceMappingURL=VerticalScrollbar.js.map

package/dist/components/VerticalScrollbar.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"VerticalScrollbar.js","sourceRoot":"","sources":["../../src/components/VerticalScrollbar.tsx"],"names":[],"mappings":"AAAA,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AACrC,OAAO,KAAK,EAAE,EAAE,SAAS,EAAE,MAAM,EAAE,QAAQ,EAAE,MAAM,OAAO,CAAA;AAE1D,OAAO,EAAE,KAAK,EAAE,MAAM,SAAS,CAAA;AAE/B,MAAM,iBAAiB,GAAG,QAAQ,CAAC,CAAC,EAAE,KAAK,EAA2B,EAAE,EAAE;IACxE,MAAM,EAAE,aAAa,EAAE,OAAO,EAAE,WAAW,EAAE,GAAG,KAAK,CAAA;IACrD,MAAM,CAAC,OAAO,EAAE,UAAU,CAAC,GAAG,QAAQ,CAAC,KAAK,CAAC,CAAA;IAC7C,MAAM,SAAS,GAAG,MAAM,CAAC,KAAK,CAAC,CAAA;IAC/B,MAAM,CAAC,SAAS,EAAE,YAAY,CAAC,GAAG,QAAQ,EAGtC,CAAA;IACJ,MAAM,IAAI,GAAG,yBAAyB,CAAA;IACtC,MAAM,IAAI,GAAG,aAAa,GAAG,WAAW,CAAA;IACxC,MAAM,GAAG,GAAG,CAAC,OAAO,CAAA;IACpB,MAAM,MAAM,GAAG,GAAG,GAAG,aAAa,CAAA;IAClC,MAAM,CAAC,GAAG,GAAG,GAAG,IAAI,CAAA;IACpB,MAAM,CAAC,GAAG,MAAM,GAAG,IAAI,CAAA;IACvB,SAAS,CAAC,GAAG,EAAE;QACb,SAAS,EAAE,CAAC,KAAiB;YAC3B,IAAI,SAAS,KAAK,SAAS,EAAE,CAAC;gBAC5B,IAAI,CAAC,SAAS,CAAC,OAAO,EAAE,CAAC;oBACvB,SAAS,CAAC,OAAO,GAAG,IAAI,CAAA;oBACxB,MAAM,CAAC,qBAAqB,CAAC,GAAG,EAAE;wBAChC,KAAK,CAAC,UAAU,CACd,KAAK,CACH,CAAC,WAAW,EACZ,SAAS,CAAC,OAAO,GAAG,CAAC,KAAK,CAAC,OAAO,GAAG,SAAS,CAAC,OAAO,CAAC,GAAG,IAAI,EAC9D,CAAC,CACF,CACF,CAAA;wBACD,SAAS,CAAC,OAAO,GAAG,KAAK,CAAA;oBAC3B,CAAC,CAAC,CAAA;gBACJ,CAAC;YACH,CAAC;QACH,CAAC;QACD,SAAS,GAAG;YACV,YAAY,CAAC,SAAS,CAAC,CAAA;QACzB,CAAC;QACD,IAAI,SAAS,KAAK,SAAS,EAAE,CAAC;YAC5B,QAAQ,CAAC,gBAAgB,CAAC,WAAW,EAAE,EAAE,CAAC,CAAA;YAC1C,QAAQ,CAAC,gBAAgB,CAAC,SAAS,EAAE,GAAG,CAAC,CAAA;YACzC,OAAO,GAAG,EAAE;gBACV,QAAQ,CAAC,mBAAmB,CAAC,WAAW,EAAE,EAAE,CAAC,CAAA;gBAC7C,QAAQ,CAAC,mBAAmB,CAAC,WAAW,EAAE,GAAG,CAAC,CAAA;YAChD,CAAC,CAAA;QACH,CAAC;IACH,CAAC,EAAE,CAAC,KAAK,EAAE,IAAI,EAAE,WAAW,EAAE,SAAS,CAAC,CAAC,CAAA;IACzC,OAAO,CACL,6BACE,KAAK,EAAE;YACL,QAAQ,EAAE,UAAU;YACpB,KAAK,EAAE,EAAE;YACT,MAAM,EAAE,aAAa;YACrB,UAAU,EAAE,gBAAgB;YAC5B,SAAS,EAAE,gBAAgB;YAC3B,SAAS,EAAE,YAAY;SACxB;QAED,6BACE,KAAK,EAAE;gBACL,QAAQ,EAAE,UAAU;gBACpB,GAAG,EAAE,IAAI,CAAC,GAAG,CAAC,CAAC,EAAE,CAAC,CAAC;gBACnB,IAAI,EAAE,CAAC;gBACP,UAAU,EAAE,OAAO,CAAC,CAAC,CAAC,sBAAsB,CAAC,CAAC,CAAC,IAAI;gBACnD,MAAM,EAAE,SAAS;gBACjB,SAAS,EAAE,YAAY;gBACvB,KAAK,EAAE,EAAE;gBACT,MAAM,EAAE,IAAI,CAAC,GAAG,CAAC,CAAC,GAAG,CAAC,EAAE,EAAE,CAAC;gBAC3B,MAAM,EAAE,GAAG;aACZ,EACD,WAAW,EAAE,GAAG,EAAE;gBAChB,UAAU,CAAC,IAAI,CAAC,CAAA;YAClB,CAAC,EACD,UAAU,EAAE,GAAG,EAAE;gBACf,UAAU,CAAC,KAAK,CAAC,CAAA;YACnB,CAAC,EACD,WAAW,EAAE,KAAK,CAAC,EAAE;gBACnB,YAAY,CAAC;oBACX,OAAO,EAAE,KAAK,CAAC,OAAO;oBACtB,OAAO,EAAE,KAAK,CAAC,OAAO;iBACvB,CAAC,CAAA;YACJ,CAAC,GACD,CACE,CACP,CAAA;AACH,CAAC,CAAC,CAAA;AACF,eAAe,iBAAiB,CAAA"}

package/dist/components/dialogs/AboutDialog.js

@@ -3,7 +3,9 @@ import { Dialog } from '@jbrowse/core/ui';
 import { DialogContent, Typography, Link } from '@mui/material';
 import { version } from '../../version';
 export default function AboutDialog({ onClose }) {
-    return (React.createElement(Dialog, { onClose: () => onClose(), open: true, title: "About this plugin" },
+    return (React.createElement(Dialog, { onClose: () => {
+            onClose();
+        }, open: true, title: "About this plugin" },
         React.createElement(DialogContent, null,
             React.createElement(Typography, null,
                 "MSAView ",

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

@@ -1 +1 @@
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package/dist/components/dialogs/AddTrackDialog.d.ts

@@ -1,8 +1,8 @@
 import React from 'react';
-import { MsaViewModel } from '../../model';
-declare const _default: ({ model, onClose, open, }: {
+import type { MsaViewModel } from '../../model';
+declare const AddTrackDialog: ({ model, onClose, open, }: {
     model: MsaViewModel;
     onClose: () => void;
     open: boolean;
 }) => React.JSX.Element;
-export default _default;
+export default AddTrackDialog;

package/dist/components/dialogs/AddTrackDialog.js

@@ -2,11 +2,13 @@ import React, { useState } from 'react';
 import { DialogContent, DialogActions, Button, TextField, MenuItem, Typography, } from '@mui/material';
 import { Dialog, FileSelector } from '@jbrowse/core/ui';
 import { observer } from 'mobx-react';
-export default observer(function ({ model, onClose, open, }) {
+const AddTrackDialog = observer(function ({ model, onClose, open, }) {
     const options = model.rows.map(r => r[0]);
     const [trackFile, setTrackFile] = useState();
     const [currentOption, setCurrentOption] = useState('');
-    return (React.createElement(Dialog, { onClose: () => onClose(), open: open, title: "Add track" },
+    return (React.createElement(Dialog, { onClose: () => {
+            onClose();
+        }, open: open, title: "Add track" },
         React.createElement(DialogContent, null,
             React.createElement(Typography, null, "Open relevant per-alignment tracks e.g. protein domains"),
             React.createElement(TextField, { select: true, helperText: "Which row does this track apply to?", value: currentOption, onChange: event => {
@@ -20,6 +22,9 @@ export default observer(function ({ model, onClose, open, }) {
                             model.setMSAFilehandle(trackFile);
                         }
                     }, variant: "contained", color: "primary" }, "Open"),
-                React.createElement(Button, { color: "secondary", variant: "contained", onClick: () => onClose() }, "Cancel")))));
+                React.createElement(Button, { color: "secondary", variant: "contained", onClick: () => {
+                        onClose();
+                    } }, "Cancel")))));
 });
+export default AddTrackDialog;
 //# sourceMappingURL=AddTrackDialog.js.map

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

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package/dist/components/dialogs/DomainDialog.d.ts

@@ -1,5 +1,5 @@
 import React from 'react';
-import { MsaViewModel } from '../../model';
+import type { MsaViewModel } from '../../model';
 export default function LaunchDomainViewDialog({ handleClose, model, }: {
     handleClose: () => void;
     model: MsaViewModel;

package/dist/components/dialogs/DomainDialog.js

@@ -2,13 +2,17 @@ import React, { useState } from 'react';
 import { Dialog } from '@jbrowse/core/ui';
 import { Tab, Tabs } from '@mui/material';
 // locals
-import InterProScanPanel from './InterProScanPanel';
-import UserProvidedResultPanel from './UserProvidedResultPanel';
+import InterProScanPanel from './InterProScanDialog';
+import UserProvidedResultPanel from './UserProvidedDomainsDialog';
 import TabPanel from './TabPanel';
 export default function LaunchDomainViewDialog({ handleClose, model, }) {
     const [choice, setChoice] = useState(0);
-    return (React.createElement(Dialog, { maxWidth: "xl", title: "Launch protein view", onClose: () => handleClose(), open: true },
-        React.createElement(Tabs, { value: choice, onChange: (_, val) => setChoice(val) },
+    return (React.createElement(Dialog, { maxWidth: "xl", title: "Launch protein view", onClose: () => {
+            handleClose();
+        }, open: true },
+        React.createElement(Tabs, { value: choice, onChange: (_, val) => {
+                setChoice(val);
+            } },
             React.createElement(Tab, { value: 0, label: "Automatic lookup" }),
             React.createElement(Tab, { value: 1, label: "Manual" })),
         React.createElement(TabPanel, { value: choice, index: 0 },

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

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package/dist/components/dialogs/ExportSVGDialog.d.ts

@@ -1,5 +1,5 @@
 import React from 'react';
-import { MsaViewModel } from '../../model';
+import type { MsaViewModel } from '../../model';
 export default function ExportSVGDialog({ model, onClose, }: {
     model: MsaViewModel;
     onClose: () => void;