@jbrowse/plugin-linear-genome-view 2.3.4 → 2.4.0

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Files changed (193) hide show
  1. package/dist/BaseLinearDisplay/components/Block.js +1 -1
  2. package/dist/BaseLinearDisplay/components/Block.js.map +1 -1
  3. package/dist/BaseLinearDisplay/components/ServerSideRenderedBlockContent.js +11 -11
  4. package/dist/BaseLinearDisplay/components/ServerSideRenderedBlockContent.js.map +1 -1
  5. package/dist/BaseLinearDisplay/models/BaseLinearDisplayModel.d.ts +74 -4
  6. package/dist/BaseLinearDisplay/models/BaseLinearDisplayModel.js +41 -22
  7. package/dist/BaseLinearDisplay/models/BaseLinearDisplayModel.js.map +1 -1
  8. package/dist/BaseLinearDisplay/models/configSchema.js +8 -0
  9. package/dist/BaseLinearDisplay/models/configSchema.js.map +1 -1
  10. package/dist/BaseLinearDisplay/models/serverSideRenderedBlock.d.ts +1 -1
  11. package/dist/BaseLinearDisplay/models/serverSideRenderedBlock.js +5 -0
  12. package/dist/BaseLinearDisplay/models/serverSideRenderedBlock.js.map +1 -1
  13. package/dist/LinearBareDisplay/model.d.ts +62 -4
  14. package/dist/LinearBasicDisplay/model.d.ts +72 -14
  15. package/dist/LinearGenomeView/components/CenterLine.js +2 -2
  16. package/dist/LinearGenomeView/components/CenterLine.js.map +1 -1
  17. package/dist/LinearGenomeView/components/Cytobands.d.ts +118 -0
  18. package/dist/LinearGenomeView/components/Cytobands.js +92 -0
  19. package/dist/LinearGenomeView/components/Cytobands.js.map +1 -0
  20. package/dist/LinearGenomeView/components/ExportSvgDialog.d.ts +1 -1
  21. package/dist/LinearGenomeView/components/ExportSvgDialog.js +24 -3
  22. package/dist/LinearGenomeView/components/ExportSvgDialog.js.map +1 -1
  23. package/dist/LinearGenomeView/components/Gridlines.js +1 -1
  24. package/dist/LinearGenomeView/components/Gridlines.js.map +1 -1
  25. package/dist/LinearGenomeView/components/Header.js +3 -4
  26. package/dist/LinearGenomeView/components/Header.js.map +1 -1
  27. package/dist/LinearGenomeView/components/LinearGenomeView.js +1 -1
  28. package/dist/LinearGenomeView/components/MiniControls.js +5 -4
  29. package/dist/LinearGenomeView/components/MiniControls.js.map +1 -1
  30. package/dist/LinearGenomeView/components/OverviewScalebar.d.ts +1 -115
  31. package/dist/LinearGenomeView/components/OverviewScalebar.js +15 -99
  32. package/dist/LinearGenomeView/components/OverviewScalebar.js.map +1 -1
  33. package/dist/LinearGenomeView/components/RubberbandSpan.js +2 -2
  34. package/dist/LinearGenomeView/components/RubberbandSpan.js.map +1 -1
  35. package/dist/LinearGenomeView/components/TrackLabel.js +4 -5
  36. package/dist/LinearGenomeView/components/TrackLabel.js.map +1 -1
  37. package/dist/LinearGenomeView/components/ZoomControls.js +5 -4
  38. package/dist/LinearGenomeView/components/ZoomControls.js.map +1 -1
  39. package/dist/LinearGenomeView/components/util.d.ts +6 -0
  40. package/dist/LinearGenomeView/components/util.js +11 -1
  41. package/dist/LinearGenomeView/components/util.js.map +1 -1
  42. package/dist/LinearGenomeView/model.d.ts +10 -2
  43. package/dist/LinearGenomeView/model.js +4 -4
  44. package/dist/LinearGenomeView/model.js.map +1 -1
  45. package/dist/LinearGenomeView/svgcomponents/SVGBackground.d.ts +6 -0
  46. package/dist/LinearGenomeView/svgcomponents/SVGBackground.js +13 -0
  47. package/dist/LinearGenomeView/svgcomponents/SVGBackground.js.map +1 -0
  48. package/dist/LinearGenomeView/svgcomponents/SVGHeader.d.ts +10 -0
  49. package/dist/LinearGenomeView/svgcomponents/SVGHeader.js +55 -0
  50. package/dist/LinearGenomeView/svgcomponents/SVGHeader.js.map +1 -0
  51. package/dist/LinearGenomeView/svgcomponents/SVGLinearGenomeView.d.ts +13 -0
  52. package/dist/LinearGenomeView/svgcomponents/SVGLinearGenomeView.js +56 -0
  53. package/dist/LinearGenomeView/svgcomponents/SVGLinearGenomeView.js.map +1 -0
  54. package/dist/LinearGenomeView/svgcomponents/SVGRegionSeparators.d.ts +8 -0
  55. package/dist/LinearGenomeView/svgcomponents/SVGRegionSeparators.js +13 -0
  56. package/dist/LinearGenomeView/svgcomponents/SVGRegionSeparators.js.map +1 -0
  57. package/dist/LinearGenomeView/svgcomponents/SVGRuler.d.ts +8 -0
  58. package/dist/LinearGenomeView/svgcomponents/SVGRuler.js +51 -0
  59. package/dist/LinearGenomeView/svgcomponents/SVGRuler.js.map +1 -0
  60. package/dist/LinearGenomeView/svgcomponents/SVGScalebar.d.ts +8 -0
  61. package/dist/LinearGenomeView/svgcomponents/SVGScalebar.js +22 -0
  62. package/dist/LinearGenomeView/svgcomponents/SVGScalebar.js.map +1 -0
  63. package/dist/LinearGenomeView/svgcomponents/SVGTrackLabel.d.ts +8 -0
  64. package/dist/LinearGenomeView/svgcomponents/SVGTrackLabel.js +15 -0
  65. package/dist/LinearGenomeView/svgcomponents/SVGTrackLabel.js.map +1 -0
  66. package/dist/LinearGenomeView/svgcomponents/SVGTracks.d.ts +23 -0
  67. package/dist/LinearGenomeView/svgcomponents/SVGTracks.js +30 -0
  68. package/dist/LinearGenomeView/svgcomponents/SVGTracks.js.map +1 -0
  69. package/dist/LinearGenomeView/util.js +1 -1
  70. package/dist/LinearGenomeView/util.js.map +1 -1
  71. package/dist/index.d.ts +133 -18
  72. package/dist/index.js +6 -2
  73. package/dist/index.js.map +1 -1
  74. package/esm/BaseLinearDisplay/components/Block.js +1 -1
  75. package/esm/BaseLinearDisplay/components/Block.js.map +1 -1
  76. package/esm/BaseLinearDisplay/components/ServerSideRenderedBlockContent.js +11 -11
  77. package/esm/BaseLinearDisplay/components/ServerSideRenderedBlockContent.js.map +1 -1
  78. package/esm/BaseLinearDisplay/models/BaseLinearDisplayModel.d.ts +74 -4
  79. package/esm/BaseLinearDisplay/models/BaseLinearDisplayModel.js +42 -23
  80. package/esm/BaseLinearDisplay/models/BaseLinearDisplayModel.js.map +1 -1
  81. package/esm/BaseLinearDisplay/models/configSchema.js +8 -0
  82. package/esm/BaseLinearDisplay/models/configSchema.js.map +1 -1
  83. package/esm/BaseLinearDisplay/models/serverSideRenderedBlock.d.ts +1 -1
  84. package/esm/BaseLinearDisplay/models/serverSideRenderedBlock.js +5 -0
  85. package/esm/BaseLinearDisplay/models/serverSideRenderedBlock.js.map +1 -1
  86. package/esm/LinearBareDisplay/model.d.ts +62 -4
  87. package/esm/LinearBasicDisplay/model.d.ts +72 -14
  88. package/esm/LinearGenomeView/components/CenterLine.js +2 -2
  89. package/esm/LinearGenomeView/components/CenterLine.js.map +1 -1
  90. package/esm/LinearGenomeView/components/Cytobands.d.ts +118 -0
  91. package/esm/LinearGenomeView/components/Cytobands.js +87 -0
  92. package/esm/LinearGenomeView/components/Cytobands.js.map +1 -0
  93. package/esm/LinearGenomeView/components/ExportSvgDialog.d.ts +1 -1
  94. package/esm/LinearGenomeView/components/ExportSvgDialog.js +25 -4
  95. package/esm/LinearGenomeView/components/ExportSvgDialog.js.map +1 -1
  96. package/esm/LinearGenomeView/components/Gridlines.js +1 -1
  97. package/esm/LinearGenomeView/components/Gridlines.js.map +1 -1
  98. package/esm/LinearGenomeView/components/Header.js +5 -6
  99. package/esm/LinearGenomeView/components/Header.js.map +1 -1
  100. package/esm/LinearGenomeView/components/LinearGenomeView.js +1 -1
  101. package/esm/LinearGenomeView/components/MiniControls.js +5 -4
  102. package/esm/LinearGenomeView/components/MiniControls.js.map +1 -1
  103. package/esm/LinearGenomeView/components/OverviewScalebar.d.ts +1 -115
  104. package/esm/LinearGenomeView/components/OverviewScalebar.js +12 -96
  105. package/esm/LinearGenomeView/components/OverviewScalebar.js.map +1 -1
  106. package/esm/LinearGenomeView/components/RubberbandSpan.js +2 -2
  107. package/esm/LinearGenomeView/components/RubberbandSpan.js.map +1 -1
  108. package/esm/LinearGenomeView/components/TrackLabel.js +4 -5
  109. package/esm/LinearGenomeView/components/TrackLabel.js.map +1 -1
  110. package/esm/LinearGenomeView/components/ZoomControls.js +5 -4
  111. package/esm/LinearGenomeView/components/ZoomControls.js.map +1 -1
  112. package/esm/LinearGenomeView/components/util.d.ts +6 -0
  113. package/esm/LinearGenomeView/components/util.js +9 -0
  114. package/esm/LinearGenomeView/components/util.js.map +1 -1
  115. package/esm/LinearGenomeView/model.d.ts +10 -2
  116. package/esm/LinearGenomeView/model.js +2 -2
  117. package/esm/LinearGenomeView/model.js.map +1 -1
  118. package/esm/LinearGenomeView/svgcomponents/SVGBackground.d.ts +6 -0
  119. package/esm/LinearGenomeView/svgcomponents/SVGBackground.js +7 -0
  120. package/esm/LinearGenomeView/svgcomponents/SVGBackground.js.map +1 -0
  121. package/esm/LinearGenomeView/svgcomponents/SVGHeader.d.ts +10 -0
  122. package/esm/LinearGenomeView/svgcomponents/SVGHeader.js +49 -0
  123. package/esm/LinearGenomeView/svgcomponents/SVGHeader.js.map +1 -0
  124. package/esm/LinearGenomeView/svgcomponents/SVGLinearGenomeView.d.ts +13 -0
  125. package/esm/LinearGenomeView/svgcomponents/SVGLinearGenomeView.js +47 -0
  126. package/esm/LinearGenomeView/svgcomponents/SVGLinearGenomeView.js.map +1 -0
  127. package/esm/LinearGenomeView/svgcomponents/SVGRegionSeparators.d.ts +8 -0
  128. package/esm/LinearGenomeView/svgcomponents/SVGRegionSeparators.js +7 -0
  129. package/esm/LinearGenomeView/svgcomponents/SVGRegionSeparators.js.map +1 -0
  130. package/esm/LinearGenomeView/svgcomponents/SVGRuler.d.ts +8 -0
  131. package/esm/LinearGenomeView/svgcomponents/SVGRuler.js +45 -0
  132. package/esm/LinearGenomeView/svgcomponents/SVGRuler.js.map +1 -0
  133. package/esm/LinearGenomeView/svgcomponents/SVGScalebar.d.ts +8 -0
  134. package/esm/LinearGenomeView/svgcomponents/SVGScalebar.js +16 -0
  135. package/esm/LinearGenomeView/svgcomponents/SVGScalebar.js.map +1 -0
  136. package/esm/LinearGenomeView/svgcomponents/SVGTrackLabel.d.ts +8 -0
  137. package/esm/LinearGenomeView/svgcomponents/SVGTrackLabel.js +9 -0
  138. package/esm/LinearGenomeView/svgcomponents/SVGTrackLabel.js.map +1 -0
  139. package/esm/LinearGenomeView/svgcomponents/SVGTracks.d.ts +23 -0
  140. package/esm/LinearGenomeView/svgcomponents/SVGTracks.js +24 -0
  141. package/esm/LinearGenomeView/svgcomponents/SVGTracks.js.map +1 -0
  142. package/esm/LinearGenomeView/util.js +1 -1
  143. package/esm/LinearGenomeView/util.js.map +1 -1
  144. package/esm/index.d.ts +133 -18
  145. package/esm/index.js +3 -2
  146. package/esm/index.js.map +1 -1
  147. package/package.json +3 -3
  148. package/src/BaseLinearDisplay/components/Block.tsx +1 -1
  149. package/src/BaseLinearDisplay/components/ServerSideRenderedBlockContent.tsx +11 -12
  150. package/src/BaseLinearDisplay/models/BaseLinearDisplayModel.tsx +53 -35
  151. package/src/BaseLinearDisplay/models/configSchema.ts +8 -0
  152. package/src/BaseLinearDisplay/models/serverSideRenderedBlock.ts +9 -17
  153. package/src/LinearGenomeView/components/CenterLine.tsx +2 -2
  154. package/src/LinearGenomeView/components/Cytobands.tsx +154 -0
  155. package/src/LinearGenomeView/components/ExportSvgDialog.tsx +56 -4
  156. package/src/LinearGenomeView/components/Gridlines.tsx +1 -1
  157. package/src/LinearGenomeView/components/Header.tsx +6 -13
  158. package/src/LinearGenomeView/components/LinearGenomeView.test.tsx +8 -11
  159. package/src/LinearGenomeView/components/LinearGenomeView.tsx +1 -1
  160. package/src/LinearGenomeView/components/MiniControls.tsx +6 -7
  161. package/src/LinearGenomeView/components/OverviewScalebar.tsx +218 -381
  162. package/src/LinearGenomeView/components/RubberbandSpan.tsx +2 -2
  163. package/src/LinearGenomeView/components/TrackLabel.tsx +2 -5
  164. package/src/LinearGenomeView/components/ZoomControls.tsx +3 -4
  165. package/src/LinearGenomeView/components/__snapshots__/LinearGenomeView.test.tsx.snap +1234 -1200
  166. package/src/LinearGenomeView/components/util.ts +13 -0
  167. package/src/LinearGenomeView/index.test.ts +9 -5
  168. package/src/LinearGenomeView/model.ts +10 -3
  169. package/src/LinearGenomeView/svgcomponents/SVGBackground.tsx +21 -0
  170. package/src/LinearGenomeView/svgcomponents/SVGHeader.tsx +93 -0
  171. package/src/LinearGenomeView/svgcomponents/SVGLinearGenomeView.tsx +114 -0
  172. package/src/LinearGenomeView/svgcomponents/SVGRegionSeparators.tsx +31 -0
  173. package/src/LinearGenomeView/svgcomponents/SVGRuler.tsx +125 -0
  174. package/src/LinearGenomeView/svgcomponents/SVGScalebar.tsx +57 -0
  175. package/src/LinearGenomeView/svgcomponents/SVGTrackLabel.tsx +45 -0
  176. package/src/LinearGenomeView/svgcomponents/SVGTracks.tsx +67 -0
  177. package/src/LinearGenomeView/util.test.ts +7 -4
  178. package/src/LinearGenomeView/util.ts +2 -2
  179. package/src/index.ts +10 -1
  180. package/dist/LinearGenomeView/components/LinearGenomeViewSvg.d.ts +0 -4
  181. package/dist/LinearGenomeView/components/LinearGenomeViewSvg.js +0 -141
  182. package/dist/LinearGenomeView/components/LinearGenomeViewSvg.js.map +0 -1
  183. package/dist/LinearGenomeView/components/Ruler.d.ts +0 -11
  184. package/dist/LinearGenomeView/components/Ruler.js +0 -39
  185. package/dist/LinearGenomeView/components/Ruler.js.map +0 -1
  186. package/esm/LinearGenomeView/components/LinearGenomeViewSvg.d.ts +0 -4
  187. package/esm/LinearGenomeView/components/LinearGenomeViewSvg.js +0 -134
  188. package/esm/LinearGenomeView/components/LinearGenomeViewSvg.js.map +0 -1
  189. package/esm/LinearGenomeView/components/Ruler.d.ts +0 -11
  190. package/esm/LinearGenomeView/components/Ruler.js +0 -34
  191. package/esm/LinearGenomeView/components/Ruler.js.map +0 -1
  192. package/src/LinearGenomeView/components/LinearGenomeViewSvg.tsx +0 -307
  193. package/src/LinearGenomeView/components/Ruler.tsx +0 -78
@@ -3,10 +3,11 @@ import { IconButton, Paper, Typography, alpha } from '@mui/material'
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  import { makeStyles } from 'tss-react/mui'
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  import { observer } from 'mobx-react'
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  import { getConf } from '@jbrowse/core/configuration'
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- import CascadingMenu from '@jbrowse/core/ui/CascadingMenu'
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  import { getSession, getContainingView } from '@jbrowse/core/util'
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  import { getTrackName } from '@jbrowse/core/util/tracks'
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  import { BaseTrackModel } from '@jbrowse/core/pluggableElementTypes/models'
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+ import { SanitizedHTML } from '@jbrowse/core/ui'
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+ import CascadingMenu from '@jbrowse/core/ui/CascadingMenu'
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  import {
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  bindTrigger,
@@ -22,7 +23,6 @@ import MinimizeIcon from '@mui/icons-material/Minimize'
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  import AddIcon from '@mui/icons-material/Add'
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  import { LinearGenomeViewModel } from '..'
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- import { SanitizedHTML } from '@jbrowse/core/ui'
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27
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  const useStyles = makeStyles()(theme => ({
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  root: {
@@ -42,7 +42,6 @@ const useStyles = makeStyles()(theme => ({
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  },
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  dragHandle: {
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  cursor: 'grab',
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- color: '#135560',
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  },
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  dragHandleIcon: {
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  display: 'inline-block',
@@ -108,7 +107,6 @@ const TrackLabel = React.forwardRef<HTMLDivElement, Props>(
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  onClick={() => view.hideTrack(trackId)}
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  className={classes.iconButton}
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  title="close this track"
111
- color="secondary"
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  >
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  <CloseIcon fontSize="small" />
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  </IconButton>
@@ -123,7 +121,6 @@ const TrackLabel = React.forwardRef<HTMLDivElement, Props>(
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  <IconButton
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  {...bindTrigger(popupState)}
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  className={classes.iconButton}
126
- color="secondary"
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  data-testid="track_menu_icon"
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  disabled={!items.length}
129
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  >
@@ -6,7 +6,7 @@ import ZoomIn from '@mui/icons-material/ZoomIn'
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  import ZoomOut from '@mui/icons-material/ZoomOut'
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  import { LinearGenomeViewModel } from '..'
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8
 
9
- const useStyles = makeStyles()({
9
+ const useStyles = makeStyles()(theme => ({
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  container: {
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  display: 'flex',
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  flexDirection: 'row',
@@ -14,8 +14,9 @@ const useStyles = makeStyles()({
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  },
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  slider: {
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  width: 70,
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+ color: theme.palette.text.secondary,
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  },
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- })
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+ }))
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20
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  function ZoomControls({ model }: { model: LinearGenomeViewModel }) {
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  const { classes } = useStyles()
@@ -31,7 +32,6 @@ function ZoomControls({ model }: { model: LinearGenomeViewModel }) {
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  data-testid="zoom_out"
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  onClick={() => model.zoom(bpPerPx * 2)}
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  disabled={bpPerPx >= maxBpPerPx - 0.0001 || scaleFactor !== 1}
34
- color="secondary"
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  size="large"
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  >
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  <ZoomOut />
@@ -51,7 +51,6 @@ function ZoomControls({ model }: { model: LinearGenomeViewModel }) {
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  data-testid="zoom_in"
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  onClick={() => model.zoom(model.bpPerPx / 2)}
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  disabled={bpPerPx <= minBpPerPx + 0.0001 || scaleFactor !== 1}
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- color="secondary"
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  size="large"
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  >
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  <ZoomIn />