jbrowse2: x/static/js/8704.ae4808df.chunk.js.map annotate

annotate x/static/js/8704.ae4808df.chunk.js.map @ 125:49f3d3878413 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit 5ea1f9c1eef1de76232e69aa6d34cda77d90d566

author	fubar
date	Sat, 05 Oct 2024 23:58:05 +0000
parents
children

rev	line source
125 49f3d3878413 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit 5ea1f9c1eef1de76232e69aa6d34cda77d90d566 fubar parents: diff changeset	1 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React, { useEffect, useState } from 'react'\nimport {\n Card,\n CardContent,\n IconButton,\n InputLabel,\n InputAdornment,\n List,\n ListItem,\n Paper,\n TextField,\n} from '@mui/material'\nimport { makeStyles } from 'tss-react/mui'\nimport { observer } from 'mobx-react'\n\n// icons\nimport DeleteIcon from '@mui/icons-material/Delete'\nimport AddIcon from '@mui/icons-material/Add'\n\n// locals\nimport { AddTrackModel } from '../model'\n\nconst useStyles = makeStyles()(theme => ({\n paper: {\n display: 'flex',\n flexDirection: 'column',\n padding: theme.spacing(1),\n },\n\n card: {\n marginTop: theme.spacing(1),\n },\n}))\n\nconst TextIndexingConfig = observer(function ({\n model,\n}: {\n model: AddTrackModel\n}) {\n const { classes } = useStyles()\n const [value1, setValue1] = useState('')\n const [value2, setValue2] = useState('')\n const [attributes, setAttributes] = useState(['Name', 'ID'])\n const [exclude, setExclude] = useState(['CDS', 'exon'])\n const sections = [\n {\n label: 'Indexing attributes',\n values: attributes,\n },\n {\n label: 'Feature types to exclude',\n values: exclude,\n },\n ]\n useEffect(() => {\n model.setTextIndexingConf({ attributes, exclude })\n }, [model, attributes, exclude])\n\n return (\n <Paper className={classes.paper}>\n <InputLabel>Indexing configuration</InputLabel>\n {sections.map((section, index) => (\n <Card raised key={section.label} className={classes.card}>\n <CardContent>\n <InputLabel>{section.label}</InputLabel>\n <List disablePadding>\n {section.values.map((val, idx) => (\n /* biome-ignore lint/suspicious/noArrayIndexKey: */\n <ListItem key={`${val}-${idx}`} disableGutters>\n <TextField\n value={val}\n InputProps={{\n endAdornment: (\n <InputAdornment position=\"end\">\n <IconButton\n onClick={() => {\n const newAttr = section.values.filter(\n (_, i) => i !== idx,\n )\n if (index === 0) {\n setAttributes(newAttr)\n } else {\n setExclude(newAttr)\n }\n }}\n >\n <DeleteIcon />\n </IconButton>\n </InputAdornment>\n ),\n }}\n />\n </ListItem>\n ))}\n <ListItem disableGutters>\n <TextField\n value={index === 0 ? value1 : value2}\n placeholder=\"add new\"\n onChange={event => {\n if (index === 0) {\n setValue1(event.target.value)\n } else {\n setValue2(event.target.value)\n }\n }}\n InputProps={{\n endAdornment: (\n <InputAdornment position=\"end\">\n <IconButton\n onClick={() => {\n if (index === 0) {\n setAttributes([...attributes, value1])\n setValue1('')\n } else {\n setExclude([...exclude, value2])\n setValue2('')\n }\n }}\n disabled={index === 0 ? value1 === '' : value2 === ''}\n data-testid=\"stringArrayAdd-Feat\"\n >\n <AddIcon />\n </IconButton>\n </InputAdornment>\n ),\n }}\n />\n </ListItem>\n </List>\n </CardContent>\n </Card>\n ))}\n </Paper>\n )\n})\n\nexport default TextIndexingConfig\n","import React from 'react'\nimport { MenuItem, TextField } from '@mui/material'\nimport { getEnv } from '@jbrowse/core/util'\nimport { observer } from 'mobx-react'\nimport { makeStyles } from 'tss-react/mui'\n\n// locals\nimport { AddTrackModel } from '../model'\n\nconst useStyles = makeStyles()(theme => ({\n spacing: {\n marginBottom: theme.spacing(3),\n },\n}))\n\nconst TrackTypeSelector = observer(({ model }: { model: AddTrackModel }) => {\n const { classes } = useStyles()\n const { pluginManager } = getEnv(model)\n const { trackType } = model\n const trackTypes = pluginManager.getTrackElements()\n\n return (\n <TextField\n className={classes.spacing}\n value={trackType}\n variant=\"outlined\"\n label=\"Track type\"\n helperText=\"Select track type\"\n select\n fullWidth\n onChange={event => {\n model.setTrackType(event.target.value)\n }}\n SelectProps={{\n // @ts-expect-error\n SelectDisplayProps: { 'data-testid': 'trackTypeSelect' },\n }}\n >\n {trackTypes.map(({ name, displayName }) => (\n <MenuItem key={name} value={name}>\n {displayName}\n </MenuItem>\n ))}\n </TextField>\n )\n})\n\nexport default TrackTypeSelector\n","import React from 'react'\nimport { ListSubheader, MenuItem, TextField } from '@mui/material'\nimport { makeStyles } from 'tss-react/mui'\nimport { getEnv } from '@jbrowse/core/util'\nimport { observer } from 'mobx-react'\nimport AdapterType from '@jbrowse/core/pluggableElementTypes/AdapterType'\n\n// locals\nimport { AddTrackModel } from '../model'\n\nconst useStyles = makeStyles()(theme => ({\n spacing: {\n marginBottom: theme.spacing(3),\n },\n}))\n\n// collate adapters into a map with\n// key: category\n// value: array of adapters with that category\nfunction categorizeAdapters(adaptersList: AdapterType[]) {\n const map = {} as Record<string, AdapterType[]>\n adaptersList.forEach(adapter => {\n const key = adapter.adapterMetadata?.category \|\| 'Default'\n if (!map[key]) {\n map[key] = []\n }\n map[key].push(adapter)\n })\n return map\n}\n\nconst TrackAdapterSelector = observer(({ model }: { model: AddTrackModel }) => {\n const { classes } = useStyles()\n const { trackAdapter } = model\n const { pluginManager } = getEnv(model)\n return (\n <TextField\n className={classes.spacing}\n value={trackAdapter?.type !== 'UNKNOWN' ? trackAdapter?.type : ''}\n label=\"Adapter type\"\n variant=\"outlined\"\n helperText=\"Select an adapter type\"\n select\n fullWidth\n onChange={event => {\n model.setAdapterHint(event.target.value)\n }}\n SelectProps={{\n // @ts-expect-error\n SelectDisplayProps: { 'data-testid': 'adapterTypeSelect' },\n }}\n >\n {Object.entries(\n categorizeAdapters(\n pluginManager\n .getAdapterElements()\n .filter(e => !e.adapterMetadata?.hiddenFromGUI),\n ),\n ).map(([key, val]) => {\n // returning array avoids needing to use a react fragment which\n // Select/TextField sub-elements disagree with\n return [\n <ListSubheader key={key}>{key}</ListSubheader>,\n val.map(elt => (\n <MenuItem key={elt.name} value={elt.name}>\n {elt.displayName}\n </MenuItem>\n )),\n ]\n })}\n </TextField>\n )\n})\n\nexport default TrackAdapterSelector\n","import React, { useEffect, useState } from 'react'\nimport {\n Checkbox,\n FormControl,\n FormControlLabel,\n Link,\n TextField,\n Typography,\n} from '@mui/material'\nimport { makeStyles } from 'tss-react/mui'\nimport {\n isSupportedIndexingAdapter,\n getSession,\n isElectron,\n} from '@jbrowse/core/util'\nimport { observer } from 'mobx-react'\nimport { UNKNOWN } from '@jbrowse/core/util/tracks'\nimport { AssemblySelector } from '@jbrowse/core/ui'\n\n// locals\nimport { AddTrackModel } from '../model'\nimport TextIndexingConfig from './TextIndexingConfig'\nimport TrackTypeSelector from './TrackTypeSelector'\nimport TrackAdapterSelector from './TrackAdapterSelector'\n\nconst useStyles = makeStyles()(theme => ({\n spacing: {\n marginBottom: theme.spacing(3),\n },\n}))\n\nfunction StatusMessage({\n trackAdapter,\n trackType,\n}: {\n trackAdapter: { type: string; subadapter?: { type: string } }\n trackType: string\n}) {\n const { classes } = useStyles()\n const { type, subadapter } = trackAdapter\n return type === 'SNPCoverageAdapter' ? (\n <Typography className={classes.spacing}>\n Selected <code>{trackType}</code>. Using adapter <code>{type}</code> with\n subadapter <code>{subadapter?.type}</code>. Please enter a track name and,\n if necessary, update the track type.\n </Typography>\n ) : (\n <Typography className={classes.spacing}>\n Using adapter <code>{type}</code> and guessing track type{' '}\n <code>{trackType}</code>. Please enter a track name and, if necessary,\n update the track type.\n </Typography>\n )\n}\n\nfunction UnknownAdapterPrompt({ model }: { model: AddTrackModel }) {\n const { classes } = useStyles()\n return (\n <>\n <Typography className={classes.spacing}>\n JBrowse was not able to guess the adapter type for this data, but it may\n be in the list below. If not, you can{' '}\n <Link\n href=\"https://github.com/GMOD/jbrowse-components/releases\"\n target=\"_blank\"\n rel=\"noopener noreferrer\"\n >\n check for new releases\n </Link>{' '}\n of JBrowse to see if they support this data type or{' '}\n <Link\n href=\"https://github.com/GMOD/jbrowse-components/issues/new\"\n target=\"_blank\"\n rel=\"noopener noreferrer\"\n >\n file an issue\n </Link>{' '}\n and add a feature request for this data type.\n </Typography>\n <TrackAdapterSelector model={model} />\n </>\n )\n}\n\nconst ConfirmTrack = observer(function ConfirmTrack({\n model,\n}: {\n model: AddTrackModel\n}) {\n const { classes } = useStyles()\n const [check, setCheck] = useState(true)\n const session = getSession(model)\n const {\n trackName,\n unsupported,\n trackAdapter,\n trackType,\n warningMessage,\n adapterHint,\n } = model\n\n useEffect(() => {\n if (adapterHint === '' && trackAdapter) {\n model.setAdapterHint(trackAdapter.type)\n }\n }, [adapterHint, trackAdapter, trackAdapter?.type, model])\n\n if (unsupported) {\n return (\n <Typography className={classes.spacing}>\n This version of JBrowse cannot display data of this type. It is\n possible, however, that there is a newer version that can display them.\n You can{' '}\n <Link\n href=\"https://github.com/GMOD/jbrowse-components/releases\"\n target=\"_blank\"\n rel=\"noopener noreferrer\"\n >\n check for new releases\n </Link>{' '}\n of JBrowse or{' '}\n <Link\n href=\"https://github.com/GMOD/jbrowse-components/issues/new\"\n target=\"_blank\"\n rel=\"noopener noreferrer\"\n >\n file an issue\n </Link>{' '}\n and add a feature request for this data type.\n </Typography>\n )\n }\n if (trackAdapter?.type === UNKNOWN) {\n return <UnknownAdapterPrompt model={model} />\n }\n\n if (!trackAdapter?.type) {\n return <Typography>Could not recognize this data type.</Typography>\n }\n\n const supportedForIndexing = isSupportedIndexingAdapter(trackAdapter.type)\n return (\n <div>\n <StatusMessage trackAdapter={trackAdapter} trackType={trackType} />\n {warningMessage ? (\n <Typography style={{ color: 'orange' }}>{warningMessage}</Typography>\n ) : null}\n <TextField\n className={classes.spacing}\n label=\"trackName\"\n helperText=\"A name for this track\"\n fullWidth\n value={trackName}\n onChange={event => {\n model.setTrackName(event.target.value)\n }}\n inputProps={{ 'data-testid': 'trackNameInput' }}\n />\n <TrackAdapterSelector model={model} />\n <TrackTypeSelector model={model} />\n <AssemblySelector\n session={session}\n helperText=\"Select assembly to add track to\"\n selected={model.assembly}\n onChange={asm => {\n model.setAssembly(asm)\n }}\n TextFieldProps={{\n fullWidth: true,\n SelectProps: {\n // @ts-expect-error\n SelectDisplayProps: { 'data-testid': 'assemblyNameSelect' },\n },\n }}\n />\n {isElectron && supportedForIndexing && (\n <FormControl>\n <FormControlLabel\n label={'Index track for text searching?'}\n control={\n <Checkbox\n checked={check}\n onChange={e => {\n setCheck(e.target.checked)\n model.setTextIndexTrack(e.target.checked)\n }}\n />\n }\n />\n </FormControl>\n )}\n {isElectron && check && supportedForIndexing ? (\n <TextIndexingConfig model={model} />\n ) : null}\n </div>\n )\n})\n\nexport default ConfirmTrack\n","import React from 'react'\nimport { FileSelector } from '@jbrowse/core/ui'\nimport { AbstractRootModel } from '@jbrowse/core/util'\nimport { Paper } from '@mui/material'\nimport { makeStyles } from 'tss-react/mui'\nimport { getRoot } from 'mobx-state-tree'\nimport { observer } from 'mobx-react'\n\n// locals\nimport { AddTrackModel } from '../model'\n\nconst useStyles = makeStyles()(theme => ({\n paper: {\n padding: theme.spacing(2),\n },\n spacer: {\n height: theme.spacing(8),\n },\n}))\n\nconst TrackSourceSelect = observer(function ({\n model,\n}: {\n model: AddTrackModel\n}) {\n const { classes } = useStyles()\n const rootModel = getRoot<AbstractRootModel>(model)\n\n return (\n <Paper className={classes.paper}>\n <FileSelector\n name=\"Main file\"\n description=\"\"\n location={model.trackData}\n setLocation={model.setTrackData}\n setName={model.setTrackName}\n rootModel={rootModel}\n />\n <div className={classes.spacer} />\n <FileSelector\n name=\"Index file\"\n description=\"(Optional) The URL of the index file is automatically inferred from the URL of the main file if it is not supplied.\"\n location={model.indexTrackData}\n setLocation={model.setIndexTrackData}\n setName={model.setTrackName}\n rootModel={rootModel}\n />\n </Paper>\n )\n})\n\nexport default TrackSourceSelect\n","import React, { useState } from 'react'\nimport {\n Alert,\n Button,\n Step,\n StepContent,\n StepLabel,\n Stepper,\n Typography,\n} from '@mui/material'\nimport { makeStyles } from 'tss-react/mui'\nimport { getRoot } from 'mobx-state-tree'\n\nimport {\n getSession,\n isElectron,\n isSessionModelWithWidgets,\n isSessionWithAddTracks,\n isSupportedIndexingAdapter,\n} from '@jbrowse/core/util'\nimport { getConf } from '@jbrowse/core/configuration'\nimport { observer } from 'mobx-react'\n\n// locals\nimport ConfirmTrack from './ConfirmTrack'\nimport TrackSourceSelect from './TrackSourceSelect'\nimport { AddTrackModel } from '../model'\n\nconst useStyles = makeStyles()(theme => ({\n root: {\n marginTop: theme.spacing(1),\n },\n stepper: {\n backgroundColor: theme.palette.background.default,\n },\n button: {\n marginRight: theme.spacing(1),\n },\n actionsContainer: {\n marginTop: theme.spacing(10),\n marginBottom: theme.spacing(2),\n },\n alertContainer: {\n padding: `${theme.spacing(2)}px 0px ${theme.spacing(2)}px 0px`,\n },\n}))\n\nconst steps = ['Enter track data', 'Confirm track type']\n\nconst DefaultAddTrackWorkflow = observer(function ({\n model,\n}: {\n model: AddTrackModel\n}) {\n const [activeStep, setActiveStep] = useState(0)\n const { classes } = useStyles()\n\n const { jobsManager } = getRoot<any>(model)\n const session = getSession(model)\n const {\n assembly,\n trackAdapter,\n trackData,\n trackName,\n trackType,\n textIndexTrack,\n textIndexingConf,\n } = model\n const [trackErrorMessage, setTrackErrorMessage] = useState<string>()\n\n function getStepContent(step: number) {\n switch (step) {\n case 0:\n return <TrackSourceSelect model={model} />\n case 1:\n return <ConfirmTrack model={model} />\n default:\n return <Typography>Unknown step</Typography>\n }\n }\n\n async function handleNext() {\n if (activeStep !== steps.length - 1) {\n setActiveStep(activeStep + 1)\n return\n }\n\n const trackId = [\n `${trackName.toLowerCase().replaceAll(' ', '_')}-${Date.now()}`,\n session.adminMode ? '' : '-sessionTrack',\n ].join('')\n\n const assemblyInstance = session.assemblyManager.get(assembly)\n if (!isSessionWithAddTracks(session)) {\n setTrackErrorMessage('Unable to add tracks to this model')\n return\n }\n if (assemblyInstance && trackAdapter && trackAdapter.type !== 'UNKNOWN') {\n session.addTrackConf({\n trackId,\n type: trackType,\n name: trackName,\n assemblyNames: [assembly],\n adapter: {\n ...trackAdapter,\n sequenceAdapter: getConf(assemblyInstance, ['sequence', 'adapter']),\n },\n })\n model.view.showTrack?.(trackId)\n if (\n isElectron &&\n textIndexTrack &&\n isSupportedIndexingAdapter(trackAdapter.type)\n ) {\n const attr = textIndexingConf \|\| {\n attributes: ['Name', 'ID'],\n exclude: ['CDS', 'exon'],\n }\n const indexName = `${trackName}-index`\n const newEntry = {\n indexingParams: {\n ...attr,\n assemblies: [assembly],\n tracks: [trackId],\n indexType: 'perTrack',\n name: indexName,\n timestamp: new Date().toISOString(),\n },\n name: indexName,\n cancelCallback: () => jobsManager.abortJob(),\n }\n jobsManager.queueJob(newEntry)\n }\n model.clearData()\n if (isSessionModelWithWidgets(session)) {\n session.hideWidget(model)\n }\n } else {\n setTrackErrorMessage(\n 'Failed to add track.\\nThe configuration of this file is not currently supported.',\n )\n }\n }\n\n function isNextDisabled() {\n switch (activeStep) {\n case 0:\n return !trackData\n case 1:\n return !(trackName && trackType && trackAdapter?.type && assembly)\n default:\n return true\n }\n }\n\n return (\n <div className={classes.root}>\n <Stepper\n className={classes.stepper}\n activeStep={activeStep}\n orientation=\"vertical\"\n >\n {steps.map((label, idx) => (\n <Step key={label}>\n <StepLabel>{label}</StepLabel>\n <StepContent>\n {getStepContent(idx)}\n <div className={classes.actionsContainer}>\n <Button\n disabled={activeStep === 0}\n onClick={() => {\n setTrackErrorMessage(undefined)\n setActiveStep(activeStep - 1)\n }}\n className={classes.button}\n >\n Back\n </Button>\n <Button\n disabled={isNextDisabled()}\n variant=\"contained\"\n color=\"primary\"\n onClick={handleNext}\n className={classes.button}\n data-testid=\"addTrackNextButton\"\n >\n {activeStep === steps.length - 1 ? 'Add' : 'Next'}\n </Button>\n </div>\n {trackErrorMessage ? (\n <div className={classes.alertContainer}>\n <Alert severity=\"error\">{trackErrorMessage}</Alert>\n </div>\n ) : null}\n </StepContent>\n </Step>\n ))}\n </Stepper>\n </div>\n )\n})\nexport default DefaultAddTrackWorkflow\n","import React, { useState } from 'react'\nimport { Button, TextField } from '@mui/material'\nimport { ErrorMessage } from '@jbrowse/core/ui'\nimport { makeStyles } from 'tss-react/mui'\nimport {\n getSession,\n isSessionModelWithWidgets,\n isSessionWithAddTracks,\n} from '@jbrowse/core/util'\nimport { observer } from 'mobx-react'\n\n// locals\nimport { AddTrackModel } from '../model'\n\nconst useStyles = makeStyles()({\n textbox: {\n width: '100%',\n },\n submit: {\n marginTop: 25,\n marginBottom: 100,\n display: 'block',\n },\n})\n\nconst PasteConfigAddTrackWorkflow = observer(function ({\n model,\n}: {\n model: AddTrackModel\n}) {\n const { classes } = useStyles()\n const [val, setVal] = useState('')\n const [error, setError] = useState<unknown>()\n\n return (\n <div>\n {error ? <ErrorMessage error={error} /> : null}\n <TextField\n multiline\n rows={10}\n value={val}\n onChange={event => {\n setVal(event.target.value)\n }}\n placeholder={\n 'Paste track config or array of track configs in JSON format'\n }\n variant=\"outlined\"\n className={classes.textbox}\n />\n <Button\n variant=\"contained\"\n className={classes.submit}\n onClick={() => {\n try {\n setError(undefined)\n const session = getSession(model)\n const conf = JSON.parse(val)\n const confs = Array.isArray(conf) ? conf : [conf]\n if (\n isSessionWithAddTracks(session) &&\n isSessionModelWithWidgets(session)\n ) {\n confs.forEach(c => {\n session.addTrackConf(c)\n })\n confs.forEach(c => model.view.showTrack(c.trackId))\n model.clearData()\n session.hideWidget(model)\n }\n } catch (e) {\n console.error(e)\n setError(e)\n }\n }}\n >\n Submit\n </Button>\n </div>\n )\n})\nexport default PasteConfigAddTrackWorkflow\n","import React, { useState } from 'react'\nimport { observer } from 'mobx-react'\nimport { FormControl, FormHelperText, Select, MenuItem } from '@mui/material'\nimport { getEnv } from '@jbrowse/core/util'\n\n// locals\nimport { AddTrackModel } from '../model'\nimport DefaultAddTrackWorkflow from './DefaultAddTrackWorkflow'\nimport PasteConfigWorkflow from './PasteConfigWorkflow'\n\nconst AddTrackSelector = observer(function ({\n model,\n}: {\n model: AddTrackModel\n}) {\n const [val, setVal] = useState('Default add track workflow')\n const { pluginManager } = getEnv(model)\n const widgets = pluginManager.getAddTrackWorkflowElements()\n const ComponentMap = {\n 'Default add track workflow': DefaultAddTrackWorkflow,\n 'Add track JSON': PasteConfigWorkflow,\n ...Object.fromEntries(widgets.map(w => [w.name, w.ReactComponent])),\n } as Record<string, React.FC<{ model: AddTrackModel }>>\n\n // make sure the selected value is in the list\n const val2 = ComponentMap[val] ? val : 'Default add track workflow'\n const Component = ComponentMap[val2]!\n return (\n <>\n <FormControl>\n <Select\n value={val2}\n onChange={event => {\n setVal(event.target.value)\n }}\n >\n {Object.keys(ComponentMap).map(e => (\n <MenuItem key={e} value={e}>\n {e}\n </MenuItem>\n ))}\n </Select>\n <FormHelperText>Type of add track workflow</FormHelperText>\n </FormControl>\n\n <br />\n <Component model={model} />\n </>\n )\n})\n\nexport default AddTrackSelector\n"],"names":["useStyles","makeStyles","theme","paper","display","flexDirection","padding","spacing","card","marginTop","observer","model","classes","value1","setValue1","useState","value2","setValue2","attributes","setAttributes","exclude","setExclude","sections","label","values","useEffect","setTextIndexingConf","React","Paper","className","InputLabel","map","section","index","Card","raised","key","CardContent","List","disablePadding","val","idx","ListItem","disableGutters","TextField","value","InputProps","endAdornment","InputAdornment","position","IconButton","onClick","newAttr","filter","_","i","DeleteIcon","placeholder","onChange","event","target","disabled","AddIcon","marginBottom","pluginManager","getEnv","trackType","trackTypes","getTrackElements","variant","helperText","select","fullWidth","setTrackType","SelectProps","SelectDisplayProps","name","displayName","MenuItem","trackAdapter","type","setAdapterHint","Object","entries","adaptersList","forEach","adapter","adapterMetadata","category","push","categorizeAdapters","getAdapterElements","e","hiddenFromGUI","ListSubheader","elt","StatusMessage","subadapter","Typography","UnknownAdapterPrompt","Link","href","rel","TrackAdapterSelector","check","setCheck","session","getSession","trackName","unsupported","warningMessage","adapterHint","UNKNOWN","supportedForIndexing","isSupportedIndexingAdapter","style","color","setTrackName","inputProps","TrackTypeSelector","AssemblySelector","selected","assembly","asm","setAssembly","TextFieldProps","isElectron","FormControl","FormControlLabel","control","Checkbox","checked","setTextIndexTrack","TextIndexingConfig","spacer","height","rootModel","getRoot","FileSelector","description","location","trackData","setLocation","setTrackData","setName","indexTrackData","setIndexTrackData","root","stepper","backgroundColor","palette","background","default","button","marginRight","actionsContainer","alertContainer","steps","activeStep","setActiveStep","jobsManager","textIndexTrack","textIndexingConf","trackErrorMessage","setTrackErrorMessage","async","handleNext","length","trackId","toLowerCase","replaceAll","Date","now","adminMode","join","assemblyInstance","assemblyManager","get","isSessionWithAddTracks","addTrackConf","assemblyNames","sequenceAdapter","getConf","view","showTrack","indexName","newEntry","indexingParams","assemblies","tracks","indexType","timestamp","toISOString","cancelCallback","abortJob","queueJob","clearData","isSessionModelWithWidgets","hideWidget","isNextDisabled","Stepper","orientation","Step","StepLabel","StepContent","step","TrackSourceSelect","ConfirmTrack","getStepContent","Button","undefined","Alert","severity","textbox","width","submit","setVal","error","setError","ErrorMessage","multiline","rows","conf","JSON","parse","confs","Array","isArray","c","console","widgets","getAddTrackWorkflowElements","ComponentMap","DefaultAddTrackWorkflow","PasteConfigWorkflow","fromEntries","w","ReactComponent","val2","Component","Select","keys","FormHelperText"],"sourceRoot":""}

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49f3d3878413 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/jbrowse2 commit 5ea1f9c1eef1de76232e69aa6d34cda77d90d566

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React, { useEffect, useState } from 'react'\nimport {\n Card,\n CardContent,\n IconButton,\n InputLabel,\n InputAdornment,\n List,\n ListItem,\n Paper,\n TextField,\n} from '@mui/material'\nimport { makeStyles } from 'tss-react/mui'\nimport { observer } from 'mobx-react'\n\n// icons\nimport DeleteIcon from '@mui/icons-material/Delete'\nimport AddIcon from '@mui/icons-material/Add'\n\n// locals\nimport { AddTrackModel } from '../model'\n\nconst useStyles = makeStyles()(theme => ({\n paper: {\n display: 'flex',\n flexDirection: 'column',\n padding: theme.spacing(1),\n },\n\n card: {\n marginTop: theme.spacing(1),\n },\n}))\n\nconst TextIndexingConfig = observer(function ({\n model,\n}: {\n model: AddTrackModel\n}) {\n const { classes } = useStyles()\n const [value1, setValue1] = useState('')\n const [value2, setValue2] = useState('')\n const [attributes, setAttributes] = useState(['Name', 'ID'])\n const [exclude, setExclude] = useState(['CDS', 'exon'])\n const sections = [\n {\n label: 'Indexing attributes',\n values: attributes,\n },\n {\n label: 'Feature types to exclude',\n values: exclude,\n },\n ]\n useEffect(() => {\n model.setTextIndexingConf({ attributes, exclude })\n }, [model, attributes, exclude])\n\n return (\n <Paper className={classes.paper}>\n <InputLabel>Indexing configuration</InputLabel>\n {sections.map((section, index) => (\n <Card raised key={section.label} className={classes.card}>\n <CardContent>\n <InputLabel>{section.label}</InputLabel>\n <List disablePadding>\n {section.values.map((val, idx) => (\n /* biome-ignore lint/suspicious/noArrayIndexKey: */\n <ListItem key={`${val}-${idx}`} disableGutters>\n <TextField\n value={val}\n InputProps={{\n endAdornment: (\n <InputAdornment position=\"end\">\n <IconButton\n onClick={() => {\n const newAttr = section.values.filter(\n (_, i) => i !== idx,\n )\n if (index === 0) {\n setAttributes(newAttr)\n } else {\n setExclude(newAttr)\n }\n }}\n >\n <DeleteIcon />\n </IconButton>\n </InputAdornment>\n ),\n }}\n />\n </ListItem>\n ))}\n <ListItem disableGutters>\n <TextField\n value={index === 0 ? value1 : value2}\n placeholder=\"add new\"\n onChange={event => {\n if (index === 0) {\n setValue1(event.target.value)\n } else {\n setValue2(event.target.value)\n }\n }}\n InputProps={{\n endAdornment: (\n <InputAdornment position=\"end\">\n <IconButton\n onClick={() => {\n if (index === 0) {\n setAttributes([...attributes, value1])\n setValue1('')\n } else {\n setExclude([...exclude, value2])\n setValue2('')\n }\n }}\n disabled={index === 0 ? value1 === '' : value2 === ''}\n data-testid=\"stringArrayAdd-Feat\"\n >\n <AddIcon />\n </IconButton>\n </InputAdornment>\n ),\n }}\n />\n </ListItem>\n </List>\n </CardContent>\n </Card>\n ))}\n </Paper>\n )\n})\n\nexport default TextIndexingConfig\n","import React from 'react'\nimport { MenuItem, TextField } from '@mui/material'\nimport { getEnv } from '@jbrowse/core/util'\nimport { observer } from 'mobx-react'\nimport { makeStyles } from 'tss-react/mui'\n\n// locals\nimport { AddTrackModel } from '../model'\n\nconst useStyles = makeStyles()(theme => ({\n spacing: {\n marginBottom: theme.spacing(3),\n },\n}))\n\nconst TrackTypeSelector = observer(({ model }: { model: AddTrackModel }) => {\n const { classes } = useStyles()\n const { pluginManager } = getEnv(model)\n const { trackType } = model\n const trackTypes = pluginManager.getTrackElements()\n\n return (\n <TextField\n className={classes.spacing}\n value={trackType}\n variant=\"outlined\"\n label=\"Track type\"\n helperText=\"Select track type\"\n select\n fullWidth\n onChange={event => {\n model.setTrackType(event.target.value)\n }}\n SelectProps={{\n // @ts-expect-error\n SelectDisplayProps: { 'data-testid': 'trackTypeSelect' },\n }}\n >\n {trackTypes.map(({ name, displayName }) => (\n <MenuItem key={name} value={name}>\n {displayName}\n </MenuItem>\n ))}\n </TextField>\n )\n})\n\nexport default TrackTypeSelector\n","import React from 'react'\nimport { ListSubheader, MenuItem, TextField } from '@mui/material'\nimport { makeStyles } from 'tss-react/mui'\nimport { getEnv } from '@jbrowse/core/util'\nimport { observer } from 'mobx-react'\nimport AdapterType from '@jbrowse/core/pluggableElementTypes/AdapterType'\n\n// locals\nimport { AddTrackModel } from '../model'\n\nconst useStyles = makeStyles()(theme => ({\n spacing: {\n marginBottom: theme.spacing(3),\n },\n}))\n\n// collate adapters into a map with\n// key: category\n// value: array of adapters with that category\nfunction categorizeAdapters(adaptersList: AdapterType[]) {\n const map = {} as Record<string, AdapterType[]>\n adaptersList.forEach(adapter => {\n const key = adapter.adapterMetadata?.category || 'Default'\n if (!map[key]) {\n map[key] = []\n }\n map[key].push(adapter)\n })\n return map\n}\n\nconst TrackAdapterSelector = observer(({ model }: { model: AddTrackModel }) => {\n const { classes } = useStyles()\n const { trackAdapter } = model\n const { pluginManager } = getEnv(model)\n return (\n <TextField\n className={classes.spacing}\n value={trackAdapter?.type !== 'UNKNOWN' ? trackAdapter?.type : ''}\n label=\"Adapter type\"\n variant=\"outlined\"\n helperText=\"Select an adapter type\"\n select\n fullWidth\n onChange={event => {\n model.setAdapterHint(event.target.value)\n }}\n SelectProps={{\n // @ts-expect-error\n SelectDisplayProps: { 'data-testid': 'adapterTypeSelect' },\n }}\n >\n {Object.entries(\n categorizeAdapters(\n pluginManager\n .getAdapterElements()\n .filter(e => !e.adapterMetadata?.hiddenFromGUI),\n ),\n ).map(([key, val]) => {\n // returning array avoids needing to use a react fragment which\n // Select/TextField sub-elements disagree with\n return [\n <ListSubheader key={key}>{key}</ListSubheader>,\n val.map(elt => (\n <MenuItem key={elt.name} value={elt.name}>\n {elt.displayName}\n </MenuItem>\n )),\n ]\n })}\n </TextField>\n )\n})\n\nexport default TrackAdapterSelector\n","import React, { useEffect, useState } from 'react'\nimport {\n Checkbox,\n FormControl,\n FormControlLabel,\n Link,\n TextField,\n Typography,\n} from '@mui/material'\nimport { makeStyles } from 'tss-react/mui'\nimport {\n isSupportedIndexingAdapter,\n getSession,\n isElectron,\n} from '@jbrowse/core/util'\nimport { observer } from 'mobx-react'\nimport { UNKNOWN } from '@jbrowse/core/util/tracks'\nimport { AssemblySelector } from '@jbrowse/core/ui'\n\n// locals\nimport { AddTrackModel } from '../model'\nimport TextIndexingConfig from './TextIndexingConfig'\nimport TrackTypeSelector from './TrackTypeSelector'\nimport TrackAdapterSelector from './TrackAdapterSelector'\n\nconst useStyles = makeStyles()(theme => ({\n spacing: {\n marginBottom: theme.spacing(3),\n },\n}))\n\nfunction StatusMessage({\n trackAdapter,\n trackType,\n}: {\n trackAdapter: { type: string; subadapter?: { type: string } }\n trackType: string\n}) {\n const { classes } = useStyles()\n const { type, subadapter } = trackAdapter\n return type === 'SNPCoverageAdapter' ? (\n <Typography className={classes.spacing}>\n Selected <code>{trackType}</code>. Using adapter <code>{type}</code> with\n subadapter <code>{subadapter?.type}</code>. Please enter a track name and,\n if necessary, update the track type.\n </Typography>\n ) : (\n <Typography className={classes.spacing}>\n Using adapter <code>{type}</code> and guessing track type{' '}\n <code>{trackType}</code>. Please enter a track name and, if necessary,\n update the track type.\n </Typography>\n )\n}\n\nfunction UnknownAdapterPrompt({ model }: { model: AddTrackModel }) {\n const { classes } = useStyles()\n return (\n <>\n <Typography className={classes.spacing}>\n JBrowse was not able to guess the adapter type for this data, but it may\n be in the list below. If not, you can{' '}\n <Link\n href=\"https://github.com/GMOD/jbrowse-components/releases\"\n target=\"_blank\"\n rel=\"noopener noreferrer\"\n >\n check for new releases\n </Link>{' '}\n of JBrowse to see if they support this data type or{' '}\n <Link\n href=\"https://github.com/GMOD/jbrowse-components/issues/new\"\n target=\"_blank\"\n rel=\"noopener noreferrer\"\n >\n file an issue\n </Link>{' '}\n and add a feature request for this data type.\n </Typography>\n <TrackAdapterSelector model={model} />\n </>\n )\n}\n\nconst ConfirmTrack = observer(function ConfirmTrack({\n model,\n}: {\n model: AddTrackModel\n}) {\n const { classes } = useStyles()\n const [check, setCheck] = useState(true)\n const session = getSession(model)\n const {\n trackName,\n unsupported,\n trackAdapter,\n trackType,\n warningMessage,\n adapterHint,\n } = model\n\n useEffect(() => {\n if (adapterHint === '' && trackAdapter) {\n model.setAdapterHint(trackAdapter.type)\n }\n }, [adapterHint, trackAdapter, trackAdapter?.type, model])\n\n if (unsupported) {\n return (\n <Typography className={classes.spacing}>\n This version of JBrowse cannot display data of this type. It is\n possible, however, that there is a newer version that can display them.\n You can{' '}\n <Link\n href=\"https://github.com/GMOD/jbrowse-components/releases\"\n target=\"_blank\"\n rel=\"noopener noreferrer\"\n >\n check for new releases\n </Link>{' '}\n of JBrowse or{' '}\n <Link\n href=\"https://github.com/GMOD/jbrowse-components/issues/new\"\n target=\"_blank\"\n rel=\"noopener noreferrer\"\n >\n file an issue\n </Link>{' '}\n and add a feature request for this data type.\n </Typography>\n )\n }\n if (trackAdapter?.type === UNKNOWN) {\n return <UnknownAdapterPrompt model={model} />\n }\n\n if (!trackAdapter?.type) {\n return <Typography>Could not recognize this data type.</Typography>\n }\n\n const supportedForIndexing = isSupportedIndexingAdapter(trackAdapter.type)\n return (\n <div>\n <StatusMessage trackAdapter={trackAdapter} trackType={trackType} />\n {warningMessage ? (\n <Typography style={{ color: 'orange' }}>{warningMessage}</Typography>\n ) : null}\n <TextField\n className={classes.spacing}\n label=\"trackName\"\n helperText=\"A name for this track\"\n fullWidth\n value={trackName}\n onChange={event => {\n model.setTrackName(event.target.value)\n }}\n inputProps={{ 'data-testid': 'trackNameInput' }}\n />\n <TrackAdapterSelector model={model} />\n <TrackTypeSelector model={model} />\n <AssemblySelector\n session={session}\n helperText=\"Select assembly to add track to\"\n selected={model.assembly}\n onChange={asm => {\n model.setAssembly(asm)\n }}\n TextFieldProps={{\n fullWidth: true,\n SelectProps: {\n // @ts-expect-error\n SelectDisplayProps: { 'data-testid': 'assemblyNameSelect' },\n },\n }}\n />\n {isElectron && supportedForIndexing && (\n <FormControl>\n <FormControlLabel\n label={'Index track for text searching?'}\n control={\n <Checkbox\n checked={check}\n onChange={e => {\n setCheck(e.target.checked)\n model.setTextIndexTrack(e.target.checked)\n }}\n />\n }\n />\n </FormControl>\n )}\n {isElectron && check && supportedForIndexing ? (\n <TextIndexingConfig model={model} />\n ) : null}\n </div>\n )\n})\n\nexport default ConfirmTrack\n","import React from 'react'\nimport { FileSelector } from '@jbrowse/core/ui'\nimport { AbstractRootModel } from '@jbrowse/core/util'\nimport { Paper } from '@mui/material'\nimport { makeStyles } from 'tss-react/mui'\nimport { getRoot } from 'mobx-state-tree'\nimport { observer } from 'mobx-react'\n\n// locals\nimport { AddTrackModel } from '../model'\n\nconst useStyles = makeStyles()(theme => ({\n paper: {\n padding: theme.spacing(2),\n },\n spacer: {\n height: theme.spacing(8),\n },\n}))\n\nconst TrackSourceSelect = observer(function ({\n model,\n}: {\n model: AddTrackModel\n}) {\n const { classes } = useStyles()\n const rootModel = getRoot<AbstractRootModel>(model)\n\n return (\n <Paper className={classes.paper}>\n <FileSelector\n name=\"Main file\"\n description=\"\"\n location={model.trackData}\n setLocation={model.setTrackData}\n setName={model.setTrackName}\n rootModel={rootModel}\n />\n <div className={classes.spacer} />\n <FileSelector\n name=\"Index file\"\n description=\"(Optional) The URL of the index file is automatically inferred from the URL of the main file if it is not supplied.\"\n location={model.indexTrackData}\n setLocation={model.setIndexTrackData}\n setName={model.setTrackName}\n rootModel={rootModel}\n />\n </Paper>\n )\n})\n\nexport default TrackSourceSelect\n","import React, { useState } from 'react'\nimport {\n Alert,\n Button,\n Step,\n StepContent,\n StepLabel,\n Stepper,\n Typography,\n} from '@mui/material'\nimport { makeStyles } from 'tss-react/mui'\nimport { getRoot } from 'mobx-state-tree'\n\nimport {\n getSession,\n isElectron,\n isSessionModelWithWidgets,\n isSessionWithAddTracks,\n isSupportedIndexingAdapter,\n} from '@jbrowse/core/util'\nimport { getConf } from '@jbrowse/core/configuration'\nimport { observer } from 'mobx-react'\n\n// locals\nimport ConfirmTrack from './ConfirmTrack'\nimport TrackSourceSelect from './TrackSourceSelect'\nimport { AddTrackModel } from '../model'\n\nconst useStyles = makeStyles()(theme => ({\n root: {\n marginTop: theme.spacing(1),\n },\n stepper: {\n backgroundColor: theme.palette.background.default,\n },\n button: {\n marginRight: theme.spacing(1),\n },\n actionsContainer: {\n marginTop: theme.spacing(10),\n marginBottom: theme.spacing(2),\n },\n alertContainer: {\n padding: `${theme.spacing(2)}px 0px ${theme.spacing(2)}px 0px`,\n },\n}))\n\nconst steps = ['Enter track data', 'Confirm track type']\n\nconst DefaultAddTrackWorkflow = observer(function ({\n model,\n}: {\n model: AddTrackModel\n}) {\n const [activeStep, setActiveStep] = useState(0)\n const { classes } = useStyles()\n\n const { jobsManager } = getRoot<any>(model)\n const session = getSession(model)\n const {\n assembly,\n trackAdapter,\n trackData,\n trackName,\n trackType,\n textIndexTrack,\n textIndexingConf,\n } = model\n const [trackErrorMessage, setTrackErrorMessage] = useState<string>()\n\n function getStepContent(step: number) {\n switch (step) {\n case 0:\n return <TrackSourceSelect model={model} />\n case 1:\n return <ConfirmTrack model={model} />\n default:\n return <Typography>Unknown step</Typography>\n }\n }\n\n async function handleNext() {\n if (activeStep !== steps.length - 1) {\n setActiveStep(activeStep + 1)\n return\n }\n\n const trackId = [\n `${trackName.toLowerCase().replaceAll(' ', '_')}-${Date.now()}`,\n session.adminMode ? '' : '-sessionTrack',\n ].join('')\n\n const assemblyInstance = session.assemblyManager.get(assembly)\n if (!isSessionWithAddTracks(session)) {\n setTrackErrorMessage('Unable to add tracks to this model')\n return\n }\n if (assemblyInstance && trackAdapter && trackAdapter.type !== 'UNKNOWN') {\n session.addTrackConf({\n trackId,\n type: trackType,\n name: trackName,\n assemblyNames: [assembly],\n adapter: {\n ...trackAdapter,\n sequenceAdapter: getConf(assemblyInstance, ['sequence', 'adapter']),\n },\n })\n model.view.showTrack?.(trackId)\n if (\n isElectron &&\n textIndexTrack &&\n isSupportedIndexingAdapter(trackAdapter.type)\n ) {\n const attr = textIndexingConf || {\n attributes: ['Name', 'ID'],\n exclude: ['CDS', 'exon'],\n }\n const indexName = `${trackName}-index`\n const newEntry = {\n indexingParams: {\n ...attr,\n assemblies: [assembly],\n tracks: [trackId],\n indexType: 'perTrack',\n name: indexName,\n timestamp: new Date().toISOString(),\n },\n name: indexName,\n cancelCallback: () => jobsManager.abortJob(),\n }\n jobsManager.queueJob(newEntry)\n }\n model.clearData()\n if (isSessionModelWithWidgets(session)) {\n session.hideWidget(model)\n }\n } else {\n setTrackErrorMessage(\n 'Failed to add track.\\nThe configuration of this file is not currently supported.',\n )\n }\n }\n\n function isNextDisabled() {\n switch (activeStep) {\n case 0:\n return !trackData\n case 1:\n return !(trackName && trackType && trackAdapter?.type && assembly)\n default:\n return true\n }\n }\n\n return (\n <div className={classes.root}>\n <Stepper\n className={classes.stepper}\n activeStep={activeStep}\n orientation=\"vertical\"\n >\n {steps.map((label, idx) => (\n <Step key={label}>\n <StepLabel>{label}</StepLabel>\n <StepContent>\n {getStepContent(idx)}\n <div className={classes.actionsContainer}>\n <Button\n disabled={activeStep === 0}\n onClick={() => {\n setTrackErrorMessage(undefined)\n setActiveStep(activeStep - 1)\n }}\n className={classes.button}\n >\n Back\n </Button>\n <Button\n disabled={isNextDisabled()}\n variant=\"contained\"\n color=\"primary\"\n onClick={handleNext}\n className={classes.button}\n data-testid=\"addTrackNextButton\"\n >\n {activeStep === steps.length - 1 ? 'Add' : 'Next'}\n </Button>\n </div>\n {trackErrorMessage ? (\n <div className={classes.alertContainer}>\n <Alert severity=\"error\">{trackErrorMessage}</Alert>\n </div>\n ) : null}\n </StepContent>\n </Step>\n ))}\n </Stepper>\n </div>\n )\n})\nexport default DefaultAddTrackWorkflow\n","import React, { useState } from 'react'\nimport { Button, TextField } from '@mui/material'\nimport { ErrorMessage } from '@jbrowse/core/ui'\nimport { makeStyles } from 'tss-react/mui'\nimport {\n getSession,\n isSessionModelWithWidgets,\n isSessionWithAddTracks,\n} from '@jbrowse/core/util'\nimport { observer } from 'mobx-react'\n\n// locals\nimport { AddTrackModel } from '../model'\n\nconst useStyles = makeStyles()({\n textbox: {\n width: '100%',\n },\n submit: {\n marginTop: 25,\n marginBottom: 100,\n display: 'block',\n },\n})\n\nconst PasteConfigAddTrackWorkflow = observer(function ({\n model,\n}: {\n model: AddTrackModel\n}) {\n const { classes } = useStyles()\n const [val, setVal] = useState('')\n const [error, setError] = useState<unknown>()\n\n return (\n <div>\n {error ? <ErrorMessage error={error} /> : null}\n <TextField\n multiline\n rows={10}\n value={val}\n onChange={event => {\n setVal(event.target.value)\n }}\n placeholder={\n 'Paste track config or array of track configs in JSON format'\n }\n variant=\"outlined\"\n className={classes.textbox}\n />\n <Button\n variant=\"contained\"\n className={classes.submit}\n onClick={() => {\n try {\n setError(undefined)\n const session = getSession(model)\n const conf = JSON.parse(val)\n const confs = Array.isArray(conf) ? conf : [conf]\n if (\n isSessionWithAddTracks(session) &&\n isSessionModelWithWidgets(session)\n ) {\n confs.forEach(c => {\n session.addTrackConf(c)\n })\n confs.forEach(c => model.view.showTrack(c.trackId))\n model.clearData()\n session.hideWidget(model)\n }\n } catch (e) {\n console.error(e)\n setError(e)\n }\n }}\n >\n Submit\n </Button>\n </div>\n )\n})\nexport default PasteConfigAddTrackWorkflow\n","import React, { useState } from 'react'\nimport { observer } from 'mobx-react'\nimport { FormControl, FormHelperText, Select, MenuItem } from '@mui/material'\nimport { getEnv } from '@jbrowse/core/util'\n\n// locals\nimport { AddTrackModel } from '../model'\nimport DefaultAddTrackWorkflow from './DefaultAddTrackWorkflow'\nimport PasteConfigWorkflow from './PasteConfigWorkflow'\n\nconst AddTrackSelector = observer(function ({\n model,\n}: {\n model: AddTrackModel\n}) {\n const [val, setVal] = useState('Default add track workflow')\n const { pluginManager } = getEnv(model)\n const widgets = pluginManager.getAddTrackWorkflowElements()\n const ComponentMap = {\n 'Default add track workflow': DefaultAddTrackWorkflow,\n 'Add track JSON': PasteConfigWorkflow,\n ...Object.fromEntries(widgets.map(w => [w.name, w.ReactComponent])),\n } as Record<string, React.FC<{ model: AddTrackModel }>>\n\n // make sure the selected value is in the list\n const val2 = ComponentMap[val] ? val : 'Default add track workflow'\n const Component = ComponentMap[val2]!\n return (\n <>\n <FormControl>\n <Select\n value={val2}\n onChange={event => {\n setVal(event.target.value)\n }}\n >\n {Object.keys(ComponentMap).map(e => (\n <MenuItem key={e} value={e}>\n {e}\n </MenuItem>\n ))}\n </Select>\n <FormHelperText>Type of add track workflow</FormHelperText>\n </FormControl>\n\n <br />\n <Component model={model} />\n </>\n )\n})\n\nexport default AddTrackSelector\n"],"names":["useStyles","makeStyles","theme","paper","display","flexDirection","padding","spacing","card","marginTop","observer","model","classes","value1","setValue1","useState","value2","setValue2","attributes","setAttributes","exclude","setExclude","sections","label","values","useEffect","setTextIndexingConf","React","Paper","className","InputLabel","map","section","index","Card","raised","key","CardContent","List","disablePadding","val","idx","ListItem","disableGutters","TextField","value","InputProps","endAdornment","InputAdornment","position","IconButton","onClick","newAttr","filter","_","i","DeleteIcon","placeholder","onChange","event","target","disabled","AddIcon","marginBottom","pluginManager","getEnv","trackType","trackTypes","getTrackElements","variant","helperText","select","fullWidth","setTrackType","SelectProps","SelectDisplayProps","name","displayName","MenuItem","trackAdapter","type","setAdapterHint","Object","entries","adaptersList","forEach","adapter","adapterMetadata","category","push","categorizeAdapters","getAdapterElements","e","hiddenFromGUI","ListSubheader","elt","StatusMessage","subadapter","Typography","UnknownAdapterPrompt","Link","href","rel","TrackAdapterSelector","check","setCheck","session","getSession","trackName","unsupported","warningMessage","adapterHint","UNKNOWN","supportedForIndexing","isSupportedIndexingAdapter","style","color","setTrackName","inputProps","TrackTypeSelector","AssemblySelector","selected","assembly","asm","setAssembly","TextFieldProps","isElectron","FormControl","FormControlLabel","control","Checkbox","checked","setTextIndexTrack","TextIndexingConfig","spacer","height","rootModel","getRoot","FileSelector","description","location","trackData","setLocation","setTrackData","setName","indexTrackData","setIndexTrackData","root","stepper","backgroundColor","palette","background","default","button","marginRight","actionsContainer","alertContainer","steps","activeStep","setActiveStep","jobsManager","textIndexTrack","textIndexingConf","trackErrorMessage","setTrackErrorMessage","async","handleNext","length","trackId","toLowerCase","replaceAll","Date","now","adminMode","join","assemblyInstance","assemblyManager","get","isSessionWithAddTracks","addTrackConf","assemblyNames","sequenceAdapter","getConf","view","showTrack","indexName","newEntry","indexingParams","assemblies","tracks","indexType","timestamp","toISOString","cancelCallback","abortJob","queueJob","clearData","isSessionModelWithWidgets","hideWidget","isNextDisabled","Stepper","orientation","Step","StepLabel","StepContent","step","TrackSourceSelect","ConfirmTrack","getStepContent","Button","undefined","Alert","severity","textbox","width","submit","setVal","error","setError","ErrorMessage","multiline","rows","conf","JSON","parse","confs","Array","isArray","c","console","widgets","getAddTrackWorkflowElements","ComponentMap","DefaultAddTrackWorkflow","PasteConfigWorkflow","fromEntries","w","ReactComponent","val2","Component","Select","keys","FormHelperText"],"sourceRoot":""}

Mercurial > repos > fubar > jbrowse2

annotate x/static/js/8704.ae4808df.chunk.js.map @ 125:49f3d3878413 draft