jbrowse-plugin-msaview 3.10.0 → 4.0.0

package/dist/AddHighlightModel/GenomeMouseoverHighlight.js

@@ -1,7 +1,7 @@
 import React from 'react';
 import { getSession } from '@jbrowse/core/util';
 import { observer } from 'mobx-react';
-import { isMsaView } from '../MsaViewPanel/model';
+import { isMsaView } from '../MsaViewPanel/isMsaView';
 import { hasHoverPosition, useStyles } from './util';
 const GenomeMouseoverHighlight = observer(function ({ model, }) {
     const { hovered, views } = getSession(model);

package/dist/AddHighlightModel/index.js

@@ -1,6 +1,6 @@
 import React from 'react';
 import { getSession } from '@jbrowse/core/util';
-import { isMsaView } from '../MsaViewPanel/model';
+import { isMsaView } from '../MsaViewPanel/isMsaView';
 import HighlightComponents from './HighlightComponents';
 export default function AddHighlightComponentsModelF(pluginManager) {
     pluginManager.addToExtensionPoint(

package/dist/LaunchMsaView/components/BlastQuery/BlastAutomaticPanel.js

@@ -103,16 +103,14 @@ const BlastAutomaticPanel = observer(function ({ handleClose, feature, model, ch
                             selectedTranscript: selectedTranscript.toJSON(),
                             proteinSequence,
                         };
-                    submit(() => {
-                        launchConnectedView({
-                            view,
-                            feature: selectedTranscript,
-                            placement,
-                            displayName: getBlastViewTitle(feature, selectedTranscript),
-                            ...builtAlignmentLook,
-                            blastParams,
-                        });
-                    });
+                    submit(() => launchConnectedView({
+                        view,
+                        feature: selectedTranscript,
+                        placement,
+                        displayName: getBlastViewTitle(feature, selectedTranscript),
+                        ...builtAlignmentLook,
+                        blastParams,
+                    }));
                 }
             }, onCancel: handleClose })));
 });

package/dist/LaunchMsaView/components/BlastQuery/BlastManualPanel.js

@@ -85,17 +85,15 @@ const BlastManualPanel = observer(function ({ handleClose, feature, model, child
                     React.createElement(QueryRowSelector, { ...queryRow })))),
         React.createElement(SubmitCancelActions, { model: model, submitDisabled: !selectedTranscript || !msaText.trim(), onSubmit: placement => {
                 if (selectedTranscript) {
-                    submit(() => {
-                        launchConnectedView({
-                            view,
-                            feature: selectedTranscript,
-                            placement,
-                            displayName: getGeneDisplayName(selectedTranscript),
-                            querySeqName: queryRow.querySeqName,
-                            querySeqOffset: queryRow.querySeqOffset,
-                            data: { msa: msaText, tree: treeText },
-                        });
-                    });
+                    submit(() => launchConnectedView({
+                        view,
+                        feature: selectedTranscript,
+                        placement,
+                        displayName: getGeneDisplayName(selectedTranscript),
+                        querySeqName: queryRow.querySeqName,
+                        querySeqOffset: queryRow.querySeqOffset,
+                        data: { msa: msaText, tree: treeText },
+                    }));
                 }
             }, onCancel: handleClose })));
 });

package/dist/LaunchMsaView/components/BlastQuery/CachedBlastResults.js

@@ -70,8 +70,10 @@ const CachedBlastResults = observer(function ({ model, handleClose, feature, })
             displayName: `BLAST - ${getResultDisplayName(cached)}`,
             ...builtAlignmentLook,
             data: { msa, tree, treeMetadata },
+        }).then(handleClose, (e) => {
+            console.error(e);
+            setOperationError(e);
         });
-        handleClose();
     };
     const displayError = error ?? operationError;
     return displayError ? (React.createElement(ErrorMessage, { error: displayError })) : isLoading ? (React.createElement(Typography, null, "Loading cached results...")) : results.length === 0 ? (React.createElement(Typography, { color: "textSecondary" }, "No cached BLAST results found for this gene. Run a BLAST query to cache results.")) : (React.createElement("div", null,

package/dist/LaunchMsaView/components/ManualMSALoader/ManualMSALoader.js

@@ -80,22 +80,20 @@ const ManualMSALoader = observer(function PreLoadedMSA2({ model, feature, handle
                 (inputMethod === 'file' && !msaFileLocation) ||
                 (inputMethod === 'text' && !msaText.trim()), onSubmit: placement => {
                 if (selectedTranscript) {
-                    submit(() => {
-                        launchConnectedView({
-                            view,
-                            feature: selectedTranscript,
-                            placement,
-                            displayName: getGeneDisplayName(selectedTranscript),
-                            querySeqName: queryRow.querySeqName,
-                            querySeqOffset: queryRow.querySeqOffset,
-                            ...(inputMethod === 'file'
-                                ? {
-                                    msaFilehandle: msaFileLocation,
-                                    treeFilehandle: treeFileLocation,
-                                }
-                                : { data: { msa: msaText, tree: treeText } }),
-                        });
-                    });
+                    submit(() => launchConnectedView({
+                        view,
+                        feature: selectedTranscript,
+                        placement,
+                        displayName: getGeneDisplayName(selectedTranscript),
+                        querySeqName: queryRow.querySeqName,
+                        querySeqOffset: queryRow.querySeqOffset,
+                        ...(inputMethod === 'file'
+                            ? {
+                                msaFilehandle: msaFileLocation,
+                                treeFilehandle: treeFileLocation,
+                            }
+                            : { data: { msa: msaText, tree: treeText } }),
+                    }));
                 }
             }, onCancel: handleClose })));
 });

package/dist/LaunchMsaView/components/OrthologQuery/OrthologPanel.js

@@ -60,24 +60,22 @@ const OrthologPanel = observer(function ({ handleClose, feature, model, preferre
             React.createElement(TranscriptSelector, { feature: feature, ...transcriptSelection })),
         React.createElement(SubmitCancelActions, { model: model, hint: React.createElement(SequenceStatusMessage, { status: sequenceStatus }), submitDisabled: !proteinSequence || !rowCountValid, onSubmit: placement => {
                 if (selectedTranscript) {
-                    submit(() => {
-                        launchConnectedView({
-                            view,
-                            feature: selectedTranscript,
-                            placement,
-                            displayName: `Orthologs - ${getGeneDisplayName(feature)} - ${getTranscriptDisplayName(selectedTranscript)}`,
-                            ...builtAlignmentLook,
-                            orthologParams: {
-                                taxId,
-                                source,
-                                maxSpecies: rowCount,
-                                geneCandidates,
-                                msaAlgorithm,
-                                selectedTranscript: selectedTranscript.toJSON(),
-                                proteinSequence,
-                            },
-                        });
-                    });
+                    submit(() => launchConnectedView({
+                        view,
+                        feature: selectedTranscript,
+                        placement,
+                        displayName: `Orthologs - ${getGeneDisplayName(feature)} - ${getTranscriptDisplayName(selectedTranscript)}`,
+                        ...builtAlignmentLook,
+                        orthologParams: {
+                            taxId,
+                            source,
+                            maxSpecies: rowCount,
+                            geneCandidates,
+                            msaAlgorithm,
+                            selectedTranscript: selectedTranscript.toJSON(),
+                            proteinSequence,
+                        },
+                    }));
                 }
             }, onCancel: handleClose })));
 });

package/dist/LaunchMsaView/components/PreLoadedMSA/PreLoadedMSADataPanel.js

@@ -82,25 +82,23 @@ const PreLoadedMSA = observer(function ({ model, feature, handleClose, preferred
             // dataset that does not cover this gene
             submitDisabled: !selectedTranscript || !msaData?.length || !querySeqName, onSubmit: placement => {
                 if (selectedTranscript && msaText) {
-                    submit(() => {
-                        launchConnectedView({
-                            view,
-                            feature: selectedTranscript,
-                            placement,
-                            displayName: getGeneDisplayName(selectedTranscript),
-                            treeAreaWidth: 200,
-                            treeWidth: 100,
-                            drawNodeBubbles: false,
-                            labelsAlignRight: true,
-                            showBranchLen: false,
-                            colWidth: 10,
-                            rowHeight: 12,
-                            colorSchemeName: 'percent_identity_dynamic',
-                            querySeqName,
-                            querySeqOffset: queryRow.querySeqOffset,
-                            data: { msa: msaText },
-                        });
-                    });
+                    submit(() => launchConnectedView({
+                        view,
+                        feature: selectedTranscript,
+                        placement,
+                        displayName: getGeneDisplayName(selectedTranscript),
+                        treeAreaWidth: 200,
+                        treeWidth: 100,
+                        drawNodeBubbles: false,
+                        labelsAlignRight: true,
+                        showBranchLen: false,
+                        colWidth: 10,
+                        rowHeight: 12,
+                        colorSchemeName: 'percent_identity_dynamic',
+                        querySeqName,
+                        querySeqOffset: queryRow.querySeqOffset,
+                        data: { msa: msaText },
+                    }));
                 }
             }, onCancel: handleClose })));
 });

package/dist/LaunchMsaView/components/launchConnectedView.d.ts

@@ -15,9 +15,9 @@ export declare function launchConnectedView({ view, feature, placement, ...snaps
     view: LinearGenomeViewModel;
     feature?: Feature;
     placement: MsaViewPlacement;
-} & Record<string, unknown>): void;
+} & Record<string, unknown>): Promise<import("@jbrowse/core/util").AbstractViewModel>;
 /** runs a panel's launch, closing the dialog on success and keeping the error */
 export declare function useLaunchSubmit(handleClose: () => void): {
     launchError: unknown;
-    submit: (launch: () => void) => void;
+    submit: (launch: () => Promise<unknown>) => void;
 };

package/dist/LaunchMsaView/components/launchConnectedView.js

@@ -12,7 +12,7 @@ export const builtAlignmentLook = {
  * through `feature` to the transcript whose codons its query row is read by.
  */
 export function launchConnectedView({ view, feature, placement, ...snapshot }) {
-    launchMsaView(getSession(view), {
+    return launchMsaView(getSession(view), {
         placement,
         connectedViewId: view.id,
         connectedFeature: feature?.toJSON(),
@@ -25,15 +25,11 @@ export function useLaunchSubmit(handleClose) {
     return {
         launchError,
         submit: (launch) => {
-            try {
-                setLaunchError(undefined);
-                launch();
-                handleClose();
-            }
-            catch (e) {
+            setLaunchError(undefined);
+            launch().then(handleClose, (e) => {
                 console.error(e);
                 setLaunchError(e);
-            }
+            });
         },
     };
 }

package/dist/LaunchMsaView/index.js

@@ -1,8 +1,9 @@
+import { lazy } from 'react';
 import { getContainingTrack, getSession } from '@jbrowse/core/util';
 import AddIcon from '@mui/icons-material/Add';
 import { isCodingFeature } from './codingFeature';
-import LaunchMsaViewDialog from './components/LaunchMsaViewDialog';
 import { launchTarget } from './launchTarget';
+const LaunchMsaViewDialog = lazy(() => import('./components/LaunchMsaViewDialog'));
 function isDisplay(elt) {
     return elt.name === 'LinearBasicDisplay';
 }

package/dist/LaunchMsaViewExtensionPoint/index.js

@@ -1,4 +1,3 @@
-import { expandSpec } from 'react-msaview';
 import { launchMsaView } from '../utils/launchMsaView';
 /**
  * `msa` and `tree` onto the plugin's own sources, so a url still goes through
@@ -23,7 +22,7 @@ function withLongSources({ msa, tree, ...args }) {
     };
 }
 export default function LaunchMsaViewExtensionPointF(pluginManager) {
-    pluginManager.addToExtensionPoint('LaunchView-MsaView', (args) => {
+    pluginManager.addToExtensionPoint('LaunchView-MsaView', async (args) => {
         const { session, query, data, msaFileLocation, msaIndexedLocation, msaName, treeFileLocation, querySeqName, searchParams, ...rest } = withLongSources(args);
         // `orthologParams` and `searchParams` name no alignment at all — the
         // view builds one at launch, which is the dialog's Orthologs and BLAST
@@ -49,7 +48,8 @@ export default function LaunchMsaViewExtensionPointF(pluginManager) {
             msaName,
             querySeqName,
         };
-        launchMsaView(session, {
+        const { expandSpec } = await import('react-msaview');
+        await launchMsaView(session, {
             ...expandSpec({ ...rest, query }),
             ...(searchParams ? { blastParams: searchParams } : {}),
             data,

package/dist/LaunchMsaViewExtensionPoint/index.test.js

@@ -1,6 +1,6 @@
 import { expect, test } from 'vitest';
 import LaunchMsaViewExtensionPointF from './index';
-function launch(args) {
+async function launch(args) {
     let run;
     LaunchMsaViewExtensionPointF({
         addToExtensionPoint(_name, cb) {
@@ -9,20 +9,20 @@ function launch(args) {
     });
     const added = [];
     const session = {
-        addView(_type, snapshot) {
+        async launchView(_type, snapshot) {
             added.push(snapshot);
             return { id: 'view-1' };
         },
     };
-    run({ session, ...args });
+    await run({ session, ...args });
     return added[0];
 }
-test('inline data carries no init, which the panel would read as a launch in flight', () => {
-    const snapshot = launch({ data: { msa: '>a\nMEEP' } });
+test('inline data carries no init, which the panel would read as a launch in flight', async () => {
+    const snapshot = await launch({ data: { msa: '>a\nMEEP' } });
     expect('init' in snapshot).toBe(false);
 });
-test('a file location travels through init', () => {
-    const snapshot = launch({
+test('a file location travels through init', async () => {
+    const snapshot = await launch({
         msaFileLocation: { uri: 'http://example.com/a.fa' },
     });
     expect(snapshot.init).toEqual({
@@ -32,8 +32,8 @@ test('a file location travels through init', () => {
         querySeqName: undefined,
     });
 });
-test('searchParams is a source, stored under the name the dialog uses', () => {
-    const snapshot = launch({
+test('searchParams is a source, stored under the name the dialog uses', async () => {
+    const snapshot = await launch({
         searchParams: {
             searchProgram: 'phmmer',
             blastDatabase: 'rp15',
@@ -50,13 +50,13 @@ test('searchParams is a source, stored under the name the dialog uses', () => {
     expect('searchParams' in snapshot).toBe(false);
     expect(snapshot.connectedTranscript).toBe('NM_000546.6');
 });
-test('a launch naming no source at all is refused', () => {
-    expect(() => launch({ connectedViewId: 'lgv1' })).toThrow(/searchParams/);
+test('a launch naming no source at all is refused', async () => {
+    await expect(launch({ connectedViewId: 'lgv1' })).rejects.toThrow(/searchParams/);
 });
-test('region and the data-layer keys reach the view as snapshot properties', () => {
+test('region and the data-layer keys reach the view as snapshot properties', async () => {
     const region = { row: 'Human', start: 245, end: 249 };
     const clades = [{ mrca: ['Human', 'Mouse'], tips: 2, mark: 'bracket' }];
-    const snapshot = launch({
+    const snapshot = await launch({
         data: { msa: '>Human\nMEEP' },
         region,
         clades,
@@ -68,8 +68,11 @@ test('region and the data-layer keys reach the view as snapshot properties', ()
     expect(snapshot.relativeTo).toBe('Human');
     expect(snapshot.gffFilehandle).toEqual({ uri: 'http://example.com/a.gff' });
 });
-test('one field set is enough to need init', () => {
-    const snapshot = launch({ data: { msa: '>a\nMEEP' }, querySeqName: 'QUERY' });
+test('one field set is enough to need init', async () => {
+    const snapshot = await launch({
+        data: { msa: '>a\nMEEP' },
+        querySeqName: 'QUERY',
+    });
     expect(snapshot.init).toEqual({
         msaUrl: undefined,
         msaIndexedLocation: undefined,
@@ -77,8 +80,8 @@ test('one field set is enough to need init', () => {
         querySeqName: 'QUERY',
     });
 });
-test('msa and tree urls reach the plugin sources, query the query row', () => {
-    const snapshot = launch({
+test('msa and tree urls reach the plugin sources, query the query row', async () => {
+    const snapshot = await launch({
         msa: 'https://example.com/p53.afa',
         tree: 'https://example.com/p53.nh',
         query: 'Human',
@@ -94,13 +97,13 @@ test('msa and tree urls reach the plugin sources, query the query row', () => {
     expect(snapshot.relativeTo).toBe('Human');
     expect('msa' in snapshot || 'query' in snapshot).toBe(false);
 });
-test('inline msa and newick text become inline data', () => {
-    const snapshot = launch({ msa: '>a\nMEEP\n>b\nMEEP', tree: '(a,b);' });
+test('inline msa and newick text become inline data', async () => {
+    const snapshot = await launch({ msa: '>a\nMEEP\n>b\nMEEP', tree: '(a,b);' });
     expect(snapshot.data).toEqual({ msa: '>a\nMEEP\n>b\nMEEP', tree: '(a,b);' });
     expect('init' in snapshot).toBe(false);
 });
-test('highlights, region and column tracks expand onto the query row', () => {
-    const snapshot = launch({
+test('highlights, region and column tracks expand onto the query row', async () => {
+    const snapshot = await launch({
         msa: 'https://example.com/p53.afa',
         query: 'Human',
         highlights: ['102-292 DNA-binding', 175],

package/dist/MsaViewPanel/index.js

@@ -1,13 +1,13 @@
 import { lazy } from 'react';
 import ViewType from '@jbrowse/core/pluggableElementTypes/ViewType';
-import stateModelFactory from './model';
-// lazies
 const MsaViewPanel = lazy(() => import('./components/MsaViewPanel'));
 export default function MsaViewF(pluginManager) {
     pluginManager.addViewType(() => {
         return new ViewType({
             name: 'MsaView',
-            stateModel: stateModelFactory(),
+            // a thunk, so react-msaview loads with the first view rather than with
+            // the plugin; addView refuses the type until then, hence launchView
+            stateModel: () => import('./model').then(m => m.default()),
             ReactComponent: MsaViewPanel,
         });
     });

package/dist/MsaViewPanel/isMsaView.d.ts

@@ -0,0 +1,4 @@
+import type { JBrowsePluginMsaViewModel } from './model';
+export declare function isMsaView(view: {
+    type: string;
+}): view is JBrowsePluginMsaViewModel;

package/dist/MsaViewPanel/isMsaView.js

@@ -0,0 +1,3 @@
+export function isMsaView(view) {
+    return view.type === 'MsaView';
+}

package/dist/MsaViewPanel/model.d.ts

@@ -1803,6 +1803,3 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
 export type JBrowsePluginMsaViewStateModel = ReturnType<typeof stateModelFactory>;
 export type JBrowsePluginMsaViewModel = Instance<JBrowsePluginMsaViewStateModel>;
 export { type MafRegion, type MsaViewInitState } from './types';
-export declare function isMsaView(view: {
-    type: string;
-}): view is JBrowsePluginMsaViewModel;

package/dist/MsaViewPanel/model.js

@@ -513,6 +513,3 @@ export default function stateModelFactory() {
         },
     }));
 }
-export function isMsaView(view) {
-    return view.type === 'MsaView';
-}

package/dist/chunks/AboutDialog-WT6GXMXU.js

@@ -0,0 +1,2 @@
+import{a as i}from"./chunk-DNFD5II2.js";import{a as m}from"./chunk-BX4Z274Q.js";import{a}from"./chunk-J6KYLXRD.js";import{b as r}from"./chunk-FY3BTKY4.js";var e=r(a(),1),o=r(i(),1),t=r(m(),1);var l="8.4.1";function c({onClose:n}){return e.default.createElement(o.Dialog,{open:!0,title:"About",onClose:()=>{n()}},e.default.createElement(t.DialogContent,null,e.default.createElement(t.Typography,null,"MSAView ",l," (",e.default.createElement(t.Link,{target:"_blank",rel:"noopener",href:"https://github.com/gmod/react-msaview"},"Github"),")"),e.default.createElement("ul",null,e.default.createElement("li",null,e.default.createElement(t.Typography,null,"We use some color schemes from the"," ",e.default.createElement(t.Link,{target:"_blank",rel:"noopener",href:"https://github.com/biotite-dev/biotite"},"biotite")," ","project, and their license is reproduced"," ",e.default.createElement(t.Link,{target:"_blank",rel:"noopener",href:"https://github.com/biotite-dev/biotite/blob/master/LICENSE.rst"},"here"))),e.default.createElement("li",null,e.default.createElement(t.Typography,null,"See this page for some information on jalview colorings"," ",e.default.createElement(t.Link,{target:"_blank",rel:"noopener",href:"https://www.jalview.org/help/html/colourSchemes/"},"here"))),e.default.createElement("li",null,e.default.createElement(t.Typography,null,"See this page for some info on the clustal, cinema, maeditor, and lesk color schemes"," ",e.default.createElement(t.Link,{target:"_blank",rel:"noopener",href:"http://www.bioinformatics.nl/~berndb/aacolour.html"},"here"))),e.default.createElement("li",null,e.default.createElement(t.Typography,null,"See this paper about the flower color scheme"," ",e.default.createElement(t.Link,{target:"_blank",rel:"noopener",href:"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7245768/"},"here"))))))}export{c as default};
+//# sourceMappingURL=AboutDialog-WT6GXMXU.js.map

package/dist/chunks/AboutDialog-WT6GXMXU.js.map

@@ -0,0 +1,7 @@
+{
+  "version": 3,
+  "sources": ["../../node_modules/.pnpm/react-msaview@8.4.1_35cd7d1fa06820f3dff395dec9803110/node_modules/react-msaview/src/components/dialogs/AboutDialog.tsx", "../../node_modules/.pnpm/react-msaview@8.4.1_35cd7d1fa06820f3dff395dec9803110/node_modules/react-msaview/src/version.ts"],
+  "sourcesContent": ["import React from 'react'\n\nimport { Dialog } from '@jbrowse/core/ui'\nimport { DialogContent, Link, Typography } from '@mui/material'\n\nimport { version } from '../../version.ts'\n\nexport default function AboutDialog({ onClose }: { onClose: () => void }) {\n  return (\n    <Dialog\n      open\n      title=\"About\"\n      onClose={() => {\n        onClose()\n      }}\n    >\n      <DialogContent>\n        <Typography>\n          MSAView {version} (\n          <Link\n            target=\"_blank\"\n            rel=\"noopener\"\n            href=\"https://github.com/gmod/react-msaview\"\n          >\n            Github\n          </Link>\n          )\n        </Typography>\n\n        <ul>\n          <li>\n            <Typography>\n              We use some color schemes from the{' '}\n              <Link\n                target=\"_blank\"\n                rel=\"noopener\"\n                href=\"https://github.com/biotite-dev/biotite\"\n              >\n                biotite\n              </Link>{' '}\n              project, and their license is reproduced{' '}\n              <Link\n                target=\"_blank\"\n                rel=\"noopener\"\n                href=\"https://github.com/biotite-dev/biotite/blob/master/LICENSE.rst\"\n              >\n                here\n              </Link>\n            </Typography>\n          </li>\n          <li>\n            <Typography>\n              See this page for some information on jalview colorings{' '}\n              <Link\n                target=\"_blank\"\n                rel=\"noopener\"\n                href=\"https://www.jalview.org/help/html/colourSchemes/\"\n              >\n                here\n              </Link>\n            </Typography>\n          </li>\n          <li>\n            <Typography>\n              See this page for some info on the clustal, cinema, maeditor, and\n              lesk color schemes{' '}\n              <Link\n                target=\"_blank\"\n                rel=\"noopener\"\n                href=\"http://www.bioinformatics.nl/~berndb/aacolour.html\"\n              >\n                here\n              </Link>\n            </Typography>\n          </li>\n          <li>\n            <Typography>\n              See this paper about the flower color scheme{' '}\n              <Link\n                target=\"_blank\"\n                rel=\"noopener\"\n                href=\"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7245768/\"\n              >\n                here\n              </Link>\n            </Typography>\n          </li>\n        </ul>\n      </DialogContent>\n    </Dialog>\n  )\n}\n", "export const version = '8.4.1'\n"],
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+  "names": ["import_react", "import_ui", "import_material", "version", "AboutDialog", "onClose", "React", "version"]
+}

package/dist/chunks/AnnotationFileDialog-34R7LFHB.js

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+//# sourceMappingURL=AnnotationFileDialog-34R7LFHB.js.map

package/dist/chunks/AnnotationFileDialog-34R7LFHB.js.map

@@ -0,0 +1,7 @@
+{
+  "version": 3,
+  "sources": ["../../node_modules/.pnpm/react-msaview@8.4.1_35cd7d1fa06820f3dff395dec9803110/node_modules/react-msaview/src/components/dialogs/AnnotationFileDialog.tsx"],
+  "sourcesContent": ["import React, { useState } from 'react'\n\nimport { Dialog, ErrorMessage } from '@jbrowse/core/ui'\nimport {\n  Button,\n  DialogActions,\n  DialogContent,\n  FormControl,\n  FormControlLabel,\n  Radio,\n  RadioGroup,\n  TextField,\n  Typography,\n} from '@mui/material'\nimport { observer } from 'mobx-react'\nimport {\n  annotationsToGFF,\n  interProScanResponseToAnnotations,\n} from 'msa-parsers'\n\nimport type { MsaViewModel } from '../../model.ts'\nimport type { InterProScanResponse } from 'msa-parsers'\n\n// GFF3 as the CLI writes it, or the JSON an InterProScan run returns. 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package/dist/chunks/BgzipFastaMsaAdapter-ZMUARSUQ.js

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