@jbrowse/plugin-linear-genome-view 1.6.6 → 1.6.7
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/dist/LinearGenomeView/components/TrackContainer.d.ts +1 -2
- package/dist/plugin-linear-genome-view.cjs.development.js +33 -23
- package/dist/plugin-linear-genome-view.cjs.development.js.map +1 -1
- package/dist/plugin-linear-genome-view.cjs.production.min.js +1 -1
- package/dist/plugin-linear-genome-view.cjs.production.min.js.map +1 -1
- package/dist/plugin-linear-genome-view.esm.js +33 -23
- package/dist/plugin-linear-genome-view.esm.js.map +1 -1
- package/package.json +2 -2
- package/src/LinearGenomeView/components/TrackContainer.tsx +38 -26
- package/src/LinearGenomeView/components/TracksContainer.tsx +0 -1
- package/src/LinearGenomeView/components/__snapshots__/LinearGenomeView.test.js.snap +195 -201
package/package.json
CHANGED
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@@ -1,6 +1,6 @@
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{
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"name": "@jbrowse/plugin-linear-genome-view",
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"version": "1.6.
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"version": "1.6.7",
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"description": "JBrowse 2 linear genome view",
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"keywords": [
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"jbrowse",
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@@ -61,5 +61,5 @@
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"publishConfig": {
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"access": "public"
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},
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"gitHead": "
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"gitHead": "02012ec299c36647f755316571775d36b0fee5ec"
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}
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@@ -1,20 +1,25 @@
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import React, { useEffect, useRef } from 'react'
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import { Paper, makeStyles } from '@material-ui/core'
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import { observer } from 'mobx-react'
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import { isAlive } from 'mobx-state-tree'
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import { getConf } from '@jbrowse/core/configuration'
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import { BaseTrackModel } from '@jbrowse/core/pluggableElementTypes/models'
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import { getConf } from '@jbrowse/core/configuration'
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import { ResizeHandle } from '@jbrowse/core/ui'
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import { useDebouncedCallback } from '@jbrowse/core/util'
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import clsx from 'clsx'
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import Paper from '@material-ui/core/Paper'
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import { makeStyles } from '@material-ui/core/styles'
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import { LinearGenomeViewModel, RESIZE_HANDLE_HEIGHT } from '..'
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import TrackLabel from './TrackLabel'
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const useStyles = makeStyles(theme => ({
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root: {
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root: {
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margin: 2,
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},
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resizeHandle: {
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height: RESIZE_HANDLE_HEIGHT,
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boxSizing: 'border-box',
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position: 'relative',
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zIndex: 2,
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},
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overlay: {
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@@ -28,7 +33,6 @@ const useStyles = makeStyles(theme => ({
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},
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trackLabel: {
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zIndex: 3,
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margin: theme.spacing(1),
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},
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trackLabelInline: {
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position: 'relative',
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@@ -44,25 +48,45 @@ const useStyles = makeStyles(theme => ({
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position: 'relative',
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background: 'none',
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zIndex: 2,
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boxSizing: 'content-box',
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},
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}))
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type LGV = LinearGenomeViewModel
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function TrackContainerLabel({
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model,
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view,
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}: {
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model: BaseTrackModel
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view: LGV
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}) {
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const classes = useStyles()
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const labelStyle =
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view.trackLabels === 'overlapping'
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? classes.trackLabelOverlap
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: classes.trackLabelInline
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return view.trackLabels !== 'hidden' ? (
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<TrackLabel
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track={model}
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className={clsx(classes.trackLabel, labelStyle)}
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/>
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) : null
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}
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function TrackContainer({
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model,
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track,
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}: {
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model:
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model: LinearGenomeViewModel
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track: BaseTrackModel
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}) {
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const classes = useStyles()
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const display = track.displays[0]
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const {
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model
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const { horizontalScroll, draggingTrackId, moveTrack } = model
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const { height } = display
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const trackId = getConf(track, 'trackId')
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const ref = useRef
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const ref = useRef(null)
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useEffect(() => {
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if (ref.current) {
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const dimmed = draggingTrackId !== undefined && draggingTrackId !== display.id
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return (
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<
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<
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<Paper className={classes.root} variant="outlined">
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<TrackContainerLabel model={track} view={model} />
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<div
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className={classes.trackRenderingContainer}
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style={{ height }}
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onScroll={event => {
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display.setScrollTop(target.scrollTop)
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}}
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onDragEnter={debouncedOnDragEnter}
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data-testid={`trackRenderingContainer-${id}-${trackId}`}
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data-testid={`trackRenderingContainer-${model.id}-${trackId}`}
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role="presentation"
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>
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{trackLabels !== 'hidden' ? (
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<TrackLabel
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track={track}
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className={clsx(
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classes.trackLabel,
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trackLabels === 'overlapping'
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? classes.trackLabelOverlap
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: classes.trackLabelInline,
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)}
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/>
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) : null}
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<div ref={ref} style={{ transform: `scaleX(${model.scaleFactor})` }}>
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<RenderingComponent
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model={display}
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blockState={{}}
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onHorizontalScroll={horizontalScroll}
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/>
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</div>
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<DisplayBlurb model={display} />
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</div>
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) : null}
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</
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</div>
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<div
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className={classes.overlay}
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style={{
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@@ -142,7 +154,7 @@ function TrackContainer({
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onDrag={display.resizeHeight}
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className={classes.resizeHandle}
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/>
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</
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</Paper>
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)
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}
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</div>
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</div>
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<div
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class="makeStyles-
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/>
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<div
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class="makeStyles-root"
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class="MuiPaper-root makeStyles-root MuiPaper-outlined MuiPaper-rounded"
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>
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<div
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class="MuiPaper-root makeStyles-
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data-testid="trackRenderingContainer-lgv-testConfig"
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role="presentation"
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style="height: 100px;"
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class="MuiPaper-root makeStyles-trackLabel makeStyles-trackLabelOverlap makeStyles-root MuiPaper-elevation1 MuiPaper-rounded"
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>
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<
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class="
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<span
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class="makeStyles-dragHandle"
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data-testid="dragHandle-lgv-testConfig"
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draggable="true"
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>
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<svg
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aria-hidden="true"
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class="MuiSvgIcon-root makeStyles-dragHandleIcon"
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focusable="false"
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viewBox="0 0 24 24"
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>
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<path
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d="M11 18c0 1.1-.9 2-2 2s-2-.9-2-2 .9-2 2-2 2 .9 2 2zm-2-8c-1.1 0-2 .9-2 2s.9 2 2 2 2-.9 2-2-.9-2-2-2zm0-6c-1.1 0-2 .9-2 2s.9 2 2 2 2-.9 2-2-.9-2-2-2zm6 4c1.1 0 2-.9 2-2s-.9-2-2-2-2 .9-2 2 .9 2 2 2zm0 2c-1.1 0-2 .9-2 2s.9 2 2 2 2-.9 2-2-.9-2-2-2zm0 6c-1.1 0-2 .9-2 2s.9 2 2 2 2-.9 2-2-.9-2-2-2z"
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/>
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</svg>
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</span>
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<button
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class="MuiButtonBase-root MuiIconButton-root makeStyles-iconButton MuiIconButton-colorSecondary"
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tabindex="0"
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title="close this track"
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type="button"
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>
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<span
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class="
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data-testid="dragHandle-lgv-testConfig"
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draggable="true"
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class="MuiIconButton-label"
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>
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<svg
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aria-hidden="true"
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class="MuiSvgIcon-root
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class="MuiSvgIcon-root"
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focusable="false"
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viewBox="0 0 24 24"
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>
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<path
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d="
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d="M19 6.41L17.59 5 12 10.59 6.41 5 5 6.41 10.59 12 5 17.59 6.41 19 12 13.41 17.59 19 19 17.59 13.41 12z"
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/>
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</svg>
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</span>
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<button
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class="MuiButtonBase-root MuiIconButton-root makeStyles-iconButton MuiIconButton-colorSecondary"
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tabindex="0"
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title="close this track"
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type="button"
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>
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aria-hidden="true"
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focusable="false"
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viewBox="0 0 24 24"
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>
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<path
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d="M19 6.41L17.59 5 12 10.59 6.41 5 5 6.41 10.59 12 5 17.59 6.41 19 12 13.41 17.59 19 19 17.59 13.41 12z"
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/>
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/>
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/>
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</button>
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<span
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class="MuiTypography-root makeStyles-trackName MuiTypography-body1"
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>
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Foo Track
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</span>
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<button
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aria-controls="simple-menu"
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aria-haspopup="true"
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class="MuiButtonBase-root MuiIconButton-root makeStyles-iconButton MuiIconButton-colorSecondary"
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data-testid="track_menu_icon"
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tabindex="0"
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type="button"
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focusable="false"
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viewBox="0 0 24 24"
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/>
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</button>
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</div>
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<div
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class="makeStyles-trackRenderingContainer"
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data-testid="trackRenderingContainer-lgv-testConfig"
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role="presentation"
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style="height: 100px;"
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>
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@@ -1342,92 +1339,89 @@ exports[`<LinearGenomeView /> renders two tracks, two regions 1`] = `
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class="MuiPaper-root makeStyles-root MuiPaper-outlined MuiPaper-rounded"
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data-testid="trackRenderingContainer-lgv-testConfig"
|
|
1353
|
-
role="presentation"
|
|
1354
|
-
style="height: 100px;"
|
|
1345
|
+
class="MuiPaper-root makeStyles-trackLabel makeStyles-trackLabelOverlap makeStyles-root MuiPaper-elevation1 MuiPaper-rounded"
|
|
1355
1346
|
>
|
|
1356
|
-
<
|
|
1357
|
-
class="
|
|
1347
|
+
<span
|
|
1348
|
+
class="makeStyles-dragHandle"
|
|
1349
|
+
data-testid="dragHandle-lgv-testConfig"
|
|
1350
|
+
draggable="true"
|
|
1351
|
+
>
|
|
1352
|
+
<svg
|
|
1353
|
+
aria-hidden="true"
|
|
1354
|
+
class="MuiSvgIcon-root makeStyles-dragHandleIcon"
|
|
1355
|
+
focusable="false"
|
|
1356
|
+
viewBox="0 0 24 24"
|
|
1357
|
+
>
|
|
1358
|
+
<path
|
|
1359
|
+
d="M11 18c0 1.1-.9 2-2 2s-2-.9-2-2 .9-2 2-2 2 .9 2 2zm-2-8c-1.1 0-2 .9-2 2s.9 2 2 2 2-.9 2-2-.9-2-2-2zm0-6c-1.1 0-2 .9-2 2s.9 2 2 2 2-.9 2-2-.9-2-2-2zm6 4c1.1 0 2-.9 2-2s-.9-2-2-2-2 .9-2 2 .9 2 2 2zm0 2c-1.1 0-2 .9-2 2s.9 2 2 2 2-.9 2-2-.9-2-2-2zm0 6c-1.1 0-2 .9-2 2s.9 2 2 2 2-.9 2-2-.9-2-2-2z"
|
|
1360
|
+
/>
|
|
1361
|
+
</svg>
|
|
1362
|
+
</span>
|
|
1363
|
+
<button
|
|
1364
|
+
class="MuiButtonBase-root MuiIconButton-root makeStyles-iconButton MuiIconButton-colorSecondary"
|
|
1365
|
+
tabindex="0"
|
|
1366
|
+
title="close this track"
|
|
1367
|
+
type="button"
|
|
1358
1368
|
>
|
|
1359
1369
|
<span
|
|
1360
|
-
class="
|
|
1361
|
-
data-testid="dragHandle-lgv-testConfig"
|
|
1362
|
-
draggable="true"
|
|
1370
|
+
class="MuiIconButton-label"
|
|
1363
1371
|
>
|
|
1364
1372
|
<svg
|
|
1365
1373
|
aria-hidden="true"
|
|
1366
|
-
class="MuiSvgIcon-root
|
|
1374
|
+
class="MuiSvgIcon-root"
|
|
1367
1375
|
focusable="false"
|
|
1368
1376
|
viewBox="0 0 24 24"
|
|
1369
1377
|
>
|
|
1370
1378
|
<path
|
|
1371
|
-
d="
|
|
1379
|
+
d="M19 6.41L17.59 5 12 10.59 6.41 5 5 6.41 10.59 12 5 17.59 6.41 19 12 13.41 17.59 19 19 17.59 13.41 12z"
|
|
1372
1380
|
/>
|
|
1373
1381
|
</svg>
|
|
1374
1382
|
</span>
|
|
1375
|
-
<button
|
|
1376
|
-
class="MuiButtonBase-root MuiIconButton-root makeStyles-iconButton MuiIconButton-colorSecondary"
|
|
1377
|
-
tabindex="0"
|
|
1378
|
-
title="close this track"
|
|
1379
|
-
type="button"
|
|
1380
|
-
>
|
|
1381
|
-
<span
|
|
1382
|
-
class="MuiIconButton-label"
|
|
1383
|
-
>
|
|
1384
|
-
<svg
|
|
1385
|
-
aria-hidden="true"
|
|
1386
|
-
class="MuiSvgIcon-root"
|
|
1387
|
-
focusable="false"
|
|
1388
|
-
viewBox="0 0 24 24"
|
|
1389
|
-
>
|
|
1390
|
-
<path
|
|
1391
|
-
d="M19 6.41L17.59 5 12 10.59 6.41 5 5 6.41 10.59 12 5 17.59 6.41 19 12 13.41 17.59 19 19 17.59 13.41 12z"
|
|
1392
|
-
/>
|
|
1393
|
-
</svg>
|
|
1394
|
-
</span>
|
|
1395
|
-
<span
|
|
1396
|
-
class="MuiTouchRipple-root"
|
|
1397
|
-
/>
|
|
1398
|
-
</button>
|
|
1399
1383
|
<span
|
|
1400
|
-
class="
|
|
1401
|
-
|
|
1402
|
-
|
|
1403
|
-
|
|
1404
|
-
|
|
1405
|
-
|
|
1406
|
-
|
|
1407
|
-
|
|
1408
|
-
|
|
1409
|
-
|
|
1410
|
-
|
|
1384
|
+
class="MuiTouchRipple-root"
|
|
1385
|
+
/>
|
|
1386
|
+
</button>
|
|
1387
|
+
<span
|
|
1388
|
+
class="MuiTypography-root makeStyles-trackName MuiTypography-body1"
|
|
1389
|
+
>
|
|
1390
|
+
Foo Track
|
|
1391
|
+
</span>
|
|
1392
|
+
<button
|
|
1393
|
+
aria-controls="simple-menu"
|
|
1394
|
+
aria-haspopup="true"
|
|
1395
|
+
class="MuiButtonBase-root MuiIconButton-root makeStyles-iconButton MuiIconButton-colorSecondary"
|
|
1396
|
+
data-testid="track_menu_icon"
|
|
1397
|
+
tabindex="0"
|
|
1398
|
+
type="button"
|
|
1399
|
+
>
|
|
1400
|
+
<span
|
|
1401
|
+
class="MuiIconButton-label"
|
|
1411
1402
|
>
|
|
1412
|
-
<
|
|
1413
|
-
|
|
1403
|
+
<svg
|
|
1404
|
+
aria-hidden="true"
|
|
1405
|
+
class="MuiSvgIcon-root"
|
|
1406
|
+
focusable="false"
|
|
1407
|
+
viewBox="0 0 24 24"
|
|
1414
1408
|
>
|
|
1415
|
-
<
|
|
1416
|
-
|
|
1417
|
-
|
|
1418
|
-
|
|
1419
|
-
|
|
1420
|
-
|
|
1421
|
-
|
|
1422
|
-
|
|
1423
|
-
|
|
1424
|
-
|
|
1425
|
-
|
|
1426
|
-
|
|
1427
|
-
|
|
1428
|
-
|
|
1429
|
-
|
|
1430
|
-
|
|
1409
|
+
<path
|
|
1410
|
+
d="M12 8c1.1 0 2-.9 2-2s-.9-2-2-2-2 .9-2 2 .9 2 2 2zm0 2c-1.1 0-2 .9-2 2s.9 2 2 2 2-.9 2-2-.9-2-2-2zm0 6c-1.1 0-2 .9-2 2s.9 2 2 2 2-.9 2-2-.9-2-2-2z"
|
|
1411
|
+
/>
|
|
1412
|
+
</svg>
|
|
1413
|
+
</span>
|
|
1414
|
+
<span
|
|
1415
|
+
class="MuiTouchRipple-root"
|
|
1416
|
+
/>
|
|
1417
|
+
</button>
|
|
1418
|
+
</div>
|
|
1419
|
+
<div
|
|
1420
|
+
class="makeStyles-trackRenderingContainer"
|
|
1421
|
+
data-testid="trackRenderingContainer-lgv-testConfig"
|
|
1422
|
+
role="presentation"
|
|
1423
|
+
style="height: 100px;"
|
|
1424
|
+
>
|
|
1431
1425
|
<div
|
|
1432
1426
|
style="transform: scaleX(1);"
|
|
1433
1427
|
>
|
|
@@ -1500,89 +1494,89 @@ exports[`<LinearGenomeView /> renders two tracks, two regions 1`] = `
|
|
|
1500
1494
|
/>
|
|
1501
1495
|
</div>
|
|
1502
1496
|
<div
|
|
1503
|
-
class="makeStyles-root"
|
|
1497
|
+
class="MuiPaper-root makeStyles-root MuiPaper-outlined MuiPaper-rounded"
|
|
1504
1498
|
>
|
|
1505
1499
|
<div
|
|
1506
|
-
class="MuiPaper-root makeStyles-
|
|
1507
|
-
data-testid="trackRenderingContainer-lgv-testConfig2"
|
|
1508
|
-
role="presentation"
|
|
1509
|
-
style="height: 100px;"
|
|
1500
|
+
class="MuiPaper-root makeStyles-trackLabel makeStyles-trackLabelOverlap makeStyles-root MuiPaper-elevation1 MuiPaper-rounded"
|
|
1510
1501
|
>
|
|
1511
|
-
<
|
|
1512
|
-
class="
|
|
1502
|
+
<span
|
|
1503
|
+
class="makeStyles-dragHandle"
|
|
1504
|
+
data-testid="dragHandle-lgv-testConfig2"
|
|
1505
|
+
draggable="true"
|
|
1506
|
+
>
|
|
1507
|
+
<svg
|
|
1508
|
+
aria-hidden="true"
|
|
1509
|
+
class="MuiSvgIcon-root makeStyles-dragHandleIcon"
|
|
1510
|
+
focusable="false"
|
|
1511
|
+
viewBox="0 0 24 24"
|
|
1512
|
+
>
|
|
1513
|
+
<path
|
|
1514
|
+
d="M11 18c0 1.1-.9 2-2 2s-2-.9-2-2 .9-2 2-2 2 .9 2 2zm-2-8c-1.1 0-2 .9-2 2s.9 2 2 2 2-.9 2-2-.9-2-2-2zm0-6c-1.1 0-2 .9-2 2s.9 2 2 2 2-.9 2-2-.9-2-2-2zm6 4c1.1 0 2-.9 2-2s-.9-2-2-2-2 .9-2 2 .9 2 2 2zm0 2c-1.1 0-2 .9-2 2s.9 2 2 2 2-.9 2-2-.9-2-2-2zm0 6c-1.1 0-2 .9-2 2s.9 2 2 2 2-.9 2-2-.9-2-2-2z"
|
|
1515
|
+
/>
|
|
1516
|
+
</svg>
|
|
1517
|
+
</span>
|
|
1518
|
+
<button
|
|
1519
|
+
class="MuiButtonBase-root MuiIconButton-root makeStyles-iconButton MuiIconButton-colorSecondary"
|
|
1520
|
+
tabindex="0"
|
|
1521
|
+
title="close this track"
|
|
1522
|
+
type="button"
|
|
1513
1523
|
>
|
|
1514
1524
|
<span
|
|
1515
|
-
class="
|
|
1516
|
-
data-testid="dragHandle-lgv-testConfig2"
|
|
1517
|
-
draggable="true"
|
|
1525
|
+
class="MuiIconButton-label"
|
|
1518
1526
|
>
|
|
1519
1527
|
<svg
|
|
1520
1528
|
aria-hidden="true"
|
|
1521
|
-
class="MuiSvgIcon-root
|
|
1529
|
+
class="MuiSvgIcon-root"
|
|
1522
1530
|
focusable="false"
|
|
1523
1531
|
viewBox="0 0 24 24"
|
|
1524
1532
|
>
|
|
1525
1533
|
<path
|
|
1526
|
-
d="
|
|
1534
|
+
d="M19 6.41L17.59 5 12 10.59 6.41 5 5 6.41 10.59 12 5 17.59 6.41 19 12 13.41 17.59 19 19 17.59 13.41 12z"
|
|
1527
1535
|
/>
|
|
1528
1536
|
</svg>
|
|
1529
1537
|
</span>
|
|
1530
|
-
<button
|
|
1531
|
-
class="MuiButtonBase-root MuiIconButton-root makeStyles-iconButton MuiIconButton-colorSecondary"
|
|
1532
|
-
tabindex="0"
|
|
1533
|
-
title="close this track"
|
|
1534
|
-
type="button"
|
|
1535
|
-
>
|
|
1536
|
-
<span
|
|
1537
|
-
class="MuiIconButton-label"
|
|
1538
|
-
>
|
|
1539
|
-
<svg
|
|
1540
|
-
aria-hidden="true"
|
|
1541
|
-
class="MuiSvgIcon-root"
|
|
1542
|
-
focusable="false"
|
|
1543
|
-
viewBox="0 0 24 24"
|
|
1544
|
-
>
|
|
1545
|
-
<path
|
|
1546
|
-
d="M19 6.41L17.59 5 12 10.59 6.41 5 5 6.41 10.59 12 5 17.59 6.41 19 12 13.41 17.59 19 19 17.59 13.41 12z"
|
|
1547
|
-
/>
|
|
1548
|
-
</svg>
|
|
1549
|
-
</span>
|
|
1550
|
-
<span
|
|
1551
|
-
class="MuiTouchRipple-root"
|
|
1552
|
-
/>
|
|
1553
|
-
</button>
|
|
1554
1538
|
<span
|
|
1555
|
-
class="
|
|
1556
|
-
|
|
1557
|
-
|
|
1558
|
-
|
|
1559
|
-
|
|
1560
|
-
|
|
1561
|
-
|
|
1562
|
-
|
|
1563
|
-
|
|
1564
|
-
|
|
1565
|
-
|
|
1539
|
+
class="MuiTouchRipple-root"
|
|
1540
|
+
/>
|
|
1541
|
+
</button>
|
|
1542
|
+
<span
|
|
1543
|
+
class="MuiTypography-root makeStyles-trackName MuiTypography-body1"
|
|
1544
|
+
>
|
|
1545
|
+
Bar Track
|
|
1546
|
+
</span>
|
|
1547
|
+
<button
|
|
1548
|
+
aria-controls="simple-menu"
|
|
1549
|
+
aria-haspopup="true"
|
|
1550
|
+
class="MuiButtonBase-root MuiIconButton-root makeStyles-iconButton MuiIconButton-colorSecondary"
|
|
1551
|
+
data-testid="track_menu_icon"
|
|
1552
|
+
tabindex="0"
|
|
1553
|
+
type="button"
|
|
1554
|
+
>
|
|
1555
|
+
<span
|
|
1556
|
+
class="MuiIconButton-label"
|
|
1566
1557
|
>
|
|
1567
|
-
<
|
|
1568
|
-
|
|
1558
|
+
<svg
|
|
1559
|
+
aria-hidden="true"
|
|
1560
|
+
class="MuiSvgIcon-root"
|
|
1561
|
+
focusable="false"
|
|
1562
|
+
viewBox="0 0 24 24"
|
|
1569
1563
|
>
|
|
1570
|
-
<
|
|
1571
|
-
|
|
1572
|
-
|
|
1573
|
-
|
|
1574
|
-
|
|
1575
|
-
|
|
1576
|
-
|
|
1577
|
-
|
|
1578
|
-
|
|
1579
|
-
|
|
1580
|
-
|
|
1581
|
-
|
|
1582
|
-
|
|
1583
|
-
|
|
1584
|
-
|
|
1585
|
-
|
|
1564
|
+
<path
|
|
1565
|
+
d="M12 8c1.1 0 2-.9 2-2s-.9-2-2-2-2 .9-2 2 .9 2 2 2zm0 2c-1.1 0-2 .9-2 2s.9 2 2 2 2-.9 2-2-.9-2-2-2zm0 6c-1.1 0-2 .9-2 2s.9 2 2 2 2-.9 2-2-.9-2-2-2z"
|
|
1566
|
+
/>
|
|
1567
|
+
</svg>
|
|
1568
|
+
</span>
|
|
1569
|
+
<span
|
|
1570
|
+
class="MuiTouchRipple-root"
|
|
1571
|
+
/>
|
|
1572
|
+
</button>
|
|
1573
|
+
</div>
|
|
1574
|
+
<div
|
|
1575
|
+
class="makeStyles-trackRenderingContainer"
|
|
1576
|
+
data-testid="trackRenderingContainer-lgv-testConfig2"
|
|
1577
|
+
role="presentation"
|
|
1578
|
+
style="height: 100px;"
|
|
1579
|
+
>
|
|
1586
1580
|
<div
|
|
1587
1581
|
style="transform: scaleX(1);"
|
|
1588
1582
|
>
|