@jbrowse/plugin-wiggle 1.7.11 → 2.1.0
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/BigWigAdapter/BigWigAdapter.d.ts +8 -7
- package/dist/BigWigAdapter/BigWigAdapter.js +205 -283
- package/dist/BigWigAdapter/BigWigAdapter.js.map +1 -0
- package/dist/BigWigAdapter/configSchema.js +17 -21
- package/dist/BigWigAdapter/configSchema.js.map +1 -0
- package/dist/BigWigAdapter/index.d.ts +3 -1
- package/dist/BigWigAdapter/index.js +42 -12
- package/dist/BigWigAdapter/index.js.map +1 -0
- package/dist/CreateMultiWiggleExtension/ConfirmDialog.d.ts +9 -0
- package/dist/CreateMultiWiggleExtension/ConfirmDialog.js +68 -0
- package/dist/CreateMultiWiggleExtension/ConfirmDialog.js.map +1 -0
- package/dist/CreateMultiWiggleExtension/index.d.ts +2 -0
- package/dist/CreateMultiWiggleExtension/index.js +111 -0
- package/dist/CreateMultiWiggleExtension/index.js.map +1 -0
- package/dist/DensityRenderer/DensityRenderer.d.ts +6 -0
- package/dist/DensityRenderer/DensityRenderer.js +74 -0
- package/dist/DensityRenderer/DensityRenderer.js.map +1 -0
- package/dist/DensityRenderer/configSchema.d.ts +2 -0
- package/dist/DensityRenderer/configSchema.js +10 -0
- package/dist/DensityRenderer/configSchema.js.map +1 -0
- package/dist/DensityRenderer/index.d.ts +3 -6
- package/dist/DensityRenderer/index.js +17 -135
- package/dist/DensityRenderer/index.js.map +1 -0
- package/dist/LinePlotRenderer/LinePlotRenderer.d.ts +4 -2
- package/dist/LinePlotRenderer/LinePlotRenderer.js +83 -168
- package/dist/LinePlotRenderer/LinePlotRenderer.js.map +1 -0
- package/dist/LinePlotRenderer/configSchema.d.ts +2 -2
- package/dist/LinePlotRenderer/configSchema.js +15 -69
- package/dist/LinePlotRenderer/configSchema.js.map +1 -0
- package/dist/LinePlotRenderer/index.d.ts +3 -3
- package/dist/LinePlotRenderer/index.js +17 -32
- package/dist/LinePlotRenderer/index.js.map +1 -0
- package/dist/LinearWiggleDisplay/components/SetColorDialog.d.ts +6 -2
- package/dist/LinearWiggleDisplay/components/SetColorDialog.js +88 -106
- package/dist/LinearWiggleDisplay/components/SetColorDialog.js.map +1 -0
- package/dist/LinearWiggleDisplay/components/SetMinMaxDialog.js +86 -107
- package/dist/LinearWiggleDisplay/components/SetMinMaxDialog.js.map +1 -0
- package/dist/LinearWiggleDisplay/components/Tooltip.d.ts +6 -11
- package/dist/LinearWiggleDisplay/components/Tooltip.js +47 -163
- package/dist/LinearWiggleDisplay/components/Tooltip.js.map +1 -0
- package/dist/LinearWiggleDisplay/components/WiggleDisplayComponent.js +44 -50
- package/dist/LinearWiggleDisplay/components/WiggleDisplayComponent.js.map +1 -0
- package/dist/LinearWiggleDisplay/components/YScaleBar.js +24 -31
- package/dist/LinearWiggleDisplay/components/YScaleBar.js.map +1 -0
- package/dist/LinearWiggleDisplay/index.d.ts +7 -3
- package/dist/LinearWiggleDisplay/index.js +27 -41
- package/dist/LinearWiggleDisplay/index.js.map +1 -0
- package/dist/LinearWiggleDisplay/models/configSchema.js +65 -69
- package/dist/LinearWiggleDisplay/models/configSchema.js.map +1 -0
- package/dist/LinearWiggleDisplay/models/model.d.ts +39 -18
- package/dist/LinearWiggleDisplay/models/model.js +538 -696
- package/dist/LinearWiggleDisplay/models/model.js.map +1 -0
- package/dist/MultiDensityRenderer/MultiDensityRenderer.d.ts +7 -0
- package/dist/MultiDensityRenderer/MultiDensityRenderer.js +135 -0
- package/dist/MultiDensityRenderer/MultiDensityRenderer.js.map +1 -0
- package/dist/MultiDensityRenderer/configSchema.d.ts +2 -0
- package/dist/MultiDensityRenderer/configSchema.js +10 -0
- package/dist/MultiDensityRenderer/configSchema.js.map +1 -0
- package/dist/MultiDensityRenderer/index.d.ts +3 -0
- package/dist/MultiDensityRenderer/index.js +19 -0
- package/dist/MultiDensityRenderer/index.js.map +1 -0
- package/dist/MultiLineRenderer/MultiLineRenderer.d.ts +7 -0
- package/dist/MultiLineRenderer/MultiLineRenderer.js +124 -0
- package/dist/MultiLineRenderer/MultiLineRenderer.js.map +1 -0
- package/dist/MultiLineRenderer/configSchema.d.ts +2 -0
- package/dist/MultiLineRenderer/configSchema.js +23 -0
- package/dist/MultiLineRenderer/configSchema.js.map +1 -0
- package/dist/MultiLineRenderer/index.d.ts +3 -0
- package/dist/MultiLineRenderer/index.js +19 -0
- package/dist/MultiLineRenderer/index.js.map +1 -0
- package/dist/MultiLinearWiggleDisplay/components/SetColorDialog.d.ts +10 -0
- package/dist/MultiLinearWiggleDisplay/components/SetColorDialog.js +239 -0
- package/dist/MultiLinearWiggleDisplay/components/SetColorDialog.js.map +1 -0
- package/dist/MultiLinearWiggleDisplay/components/SetMinMaxDialog.d.ts +11 -0
- package/dist/MultiLinearWiggleDisplay/components/SetMinMaxDialog.js +91 -0
- package/dist/MultiLinearWiggleDisplay/components/SetMinMaxDialog.js.map +1 -0
- package/dist/MultiLinearWiggleDisplay/components/Tooltip.d.ts +25 -0
- package/dist/MultiLinearWiggleDisplay/components/Tooltip.js +78 -0
- package/dist/MultiLinearWiggleDisplay/components/Tooltip.js.map +1 -0
- package/dist/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.d.ts +13 -0
- package/dist/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.js +144 -0
- package/dist/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.js.map +1 -0
- package/dist/MultiLinearWiggleDisplay/components/YScaleBar.d.ts +7 -0
- package/dist/MultiLinearWiggleDisplay/components/YScaleBar.js +26 -0
- package/dist/MultiLinearWiggleDisplay/components/YScaleBar.js.map +1 -0
- package/dist/MultiLinearWiggleDisplay/components/util.d.ts +10 -0
- package/dist/MultiLinearWiggleDisplay/components/util.js +38 -0
- package/dist/MultiLinearWiggleDisplay/components/util.js.map +1 -0
- package/dist/MultiLinearWiggleDisplay/index.d.ts +3 -0
- package/dist/MultiLinearWiggleDisplay/index.js +23 -0
- package/dist/MultiLinearWiggleDisplay/index.js.map +1 -0
- package/dist/MultiLinearWiggleDisplay/models/configSchema.d.ts +2 -0
- package/dist/MultiLinearWiggleDisplay/models/configSchema.js +77 -0
- package/dist/MultiLinearWiggleDisplay/models/configSchema.js.map +1 -0
- package/dist/MultiLinearWiggleDisplay/models/model.d.ts +339 -0
- package/dist/MultiLinearWiggleDisplay/models/model.js +675 -0
- package/dist/MultiLinearWiggleDisplay/models/model.js.map +1 -0
- package/dist/MultiQuantitativeTrack/index.d.ts +3 -0
- package/dist/MultiQuantitativeTrack/index.js +19 -0
- package/dist/MultiQuantitativeTrack/index.js.map +1 -0
- package/dist/MultiRowLineRenderer/MultiRowLineRenderer.d.ts +7 -0
- package/dist/MultiRowLineRenderer/MultiRowLineRenderer.js +131 -0
- package/dist/MultiRowLineRenderer/MultiRowLineRenderer.js.map +1 -0
- package/dist/MultiRowLineRenderer/configSchema.d.ts +2 -0
- package/dist/MultiRowLineRenderer/configSchema.js +23 -0
- package/dist/MultiRowLineRenderer/configSchema.js.map +1 -0
- package/dist/MultiRowLineRenderer/index.d.ts +3 -0
- package/dist/MultiRowLineRenderer/index.js +19 -0
- package/dist/MultiRowLineRenderer/index.js.map +1 -0
- package/dist/MultiRowXYPlotRenderer/MultiRowXYPlotRenderer.d.ts +7 -0
- package/dist/MultiRowXYPlotRenderer/MultiRowXYPlotRenderer.js +164 -0
- package/dist/MultiRowXYPlotRenderer/MultiRowXYPlotRenderer.js.map +1 -0
- package/dist/MultiRowXYPlotRenderer/configSchema.d.ts +2 -0
- package/dist/MultiRowXYPlotRenderer/configSchema.js +31 -0
- package/dist/MultiRowXYPlotRenderer/configSchema.js.map +1 -0
- package/dist/MultiRowXYPlotRenderer/index.d.ts +3 -0
- package/dist/MultiRowXYPlotRenderer/index.js +19 -0
- package/dist/MultiRowXYPlotRenderer/index.js.map +1 -0
- package/dist/MultiWiggleAdapter/MultiWiggleAdapter.d.ts +28 -0
- package/dist/MultiWiggleAdapter/MultiWiggleAdapter.js +244 -0
- package/dist/MultiWiggleAdapter/MultiWiggleAdapter.js.map +1 -0
- package/dist/MultiWiggleAdapter/configSchema.d.ts +2 -0
- package/dist/MultiWiggleAdapter/configSchema.js +14 -0
- package/dist/MultiWiggleAdapter/configSchema.js.map +1 -0
- package/dist/MultiWiggleAdapter/index.d.ts +3 -0
- package/dist/MultiWiggleAdapter/index.js +47 -0
- package/dist/MultiWiggleAdapter/index.js.map +1 -0
- package/dist/MultiWiggleAddTrackWidget/AddTrackWorkflow.d.ts +5 -0
- package/dist/MultiWiggleAddTrackWidget/AddTrackWorkflow.js +139 -0
- package/dist/MultiWiggleAddTrackWidget/AddTrackWorkflow.js.map +1 -0
- package/dist/MultiWiggleAddTrackWidget/index.d.ts +3 -0
- package/dist/MultiWiggleAddTrackWidget/index.js +19 -0
- package/dist/MultiWiggleAddTrackWidget/index.js.map +1 -0
- package/dist/MultiWiggleRendering.d.ts +21 -0
- package/dist/MultiWiggleRendering.js +164 -0
- package/dist/MultiWiggleRendering.js.map +1 -0
- package/dist/MultiXYPlotRenderer/MultiXYPlotRenderer.d.ts +7 -0
- package/dist/MultiXYPlotRenderer/MultiXYPlotRenderer.js +153 -0
- package/dist/MultiXYPlotRenderer/MultiXYPlotRenderer.js.map +1 -0
- package/dist/MultiXYPlotRenderer/configSchema.d.ts +2 -0
- package/dist/MultiXYPlotRenderer/configSchema.js +31 -0
- package/dist/MultiXYPlotRenderer/configSchema.js.map +1 -0
- package/dist/MultiXYPlotRenderer/index.d.ts +3 -0
- package/dist/MultiXYPlotRenderer/index.js +19 -0
- package/dist/MultiXYPlotRenderer/index.js.map +1 -0
- package/dist/QuantitativeTrack/index.d.ts +3 -0
- package/dist/QuantitativeTrack/index.js +19 -0
- package/dist/QuantitativeTrack/index.js.map +1 -0
- package/dist/Tooltip.d.ts +20 -0
- package/dist/Tooltip.js +124 -0
- package/dist/Tooltip.js.map +1 -0
- package/dist/WiggleBaseRenderer.d.ts +11 -12
- package/dist/WiggleBaseRenderer.js +132 -129
- package/dist/WiggleBaseRenderer.js.map +1 -0
- package/dist/WiggleRPC/rpcMethods.d.ts +17 -1
- package/dist/WiggleRPC/rpcMethods.js +258 -289
- package/dist/WiggleRPC/rpcMethods.js.map +1 -0
- package/dist/WiggleRendering.d.ts +1 -1
- package/dist/WiggleRendering.js +103 -102
- package/dist/WiggleRendering.js.map +1 -0
- package/dist/XYPlotRenderer/XYPlotRenderer.d.ts +4 -1
- package/dist/XYPlotRenderer/XYPlotRenderer.js +147 -194
- package/dist/XYPlotRenderer/XYPlotRenderer.js.map +1 -0
- package/dist/XYPlotRenderer/configSchema.d.ts +2 -0
- package/dist/XYPlotRenderer/configSchema.js +31 -0
- package/dist/XYPlotRenderer/configSchema.js.map +1 -0
- package/dist/XYPlotRenderer/index.d.ts +7 -3
- package/dist/XYPlotRenderer/index.js +21 -32
- package/dist/XYPlotRenderer/index.js.map +1 -0
- package/dist/configSchema.js +42 -74
- package/dist/configSchema.js.map +1 -0
- package/dist/drawxy.d.ts +50 -0
- package/dist/drawxy.js +411 -0
- package/dist/drawxy.js.map +1 -0
- package/dist/index.d.ts +194 -85
- package/dist/index.js +139 -247
- package/dist/index.js.map +1 -0
- package/dist/util.d.ts +34 -1
- package/dist/util.js +270 -143
- package/dist/util.js.map +1 -0
- package/esm/BigWigAdapter/BigWigAdapter.d.ts +25 -0
- package/esm/BigWigAdapter/BigWigAdapter.js +81 -0
- package/esm/BigWigAdapter/BigWigAdapter.js.map +1 -0
- package/esm/BigWigAdapter/configSchema.d.ts +2 -0
- package/esm/BigWigAdapter/configSchema.js +16 -0
- package/esm/BigWigAdapter/configSchema.js.map +1 -0
- package/esm/BigWigAdapter/index.d.ts +3 -0
- package/esm/BigWigAdapter/index.js +15 -0
- package/esm/BigWigAdapter/index.js.map +1 -0
- package/esm/CreateMultiWiggleExtension/ConfirmDialog.d.ts +9 -0
- package/esm/CreateMultiWiggleExtension/ConfirmDialog.js +26 -0
- package/esm/CreateMultiWiggleExtension/ConfirmDialog.js.map +1 -0
- package/esm/CreateMultiWiggleExtension/index.d.ts +2 -0
- package/esm/CreateMultiWiggleExtension/index.js +51 -0
- package/esm/CreateMultiWiggleExtension/index.js.map +1 -0
- package/esm/DensityRenderer/DensityRenderer.d.ts +6 -0
- package/esm/DensityRenderer/DensityRenderer.js +8 -0
- package/esm/DensityRenderer/DensityRenderer.js.map +1 -0
- package/esm/DensityRenderer/configSchema.d.ts +2 -0
- package/esm/DensityRenderer/configSchema.js +5 -0
- package/esm/DensityRenderer/configSchema.js.map +1 -0
- package/esm/DensityRenderer/index.d.ts +3 -0
- package/esm/DensityRenderer/index.js +12 -0
- package/esm/DensityRenderer/index.js.map +1 -0
- package/esm/LinePlotRenderer/LinePlotRenderer.d.ts +6 -0
- package/esm/LinePlotRenderer/LinePlotRenderer.js +13 -0
- package/esm/LinePlotRenderer/LinePlotRenderer.js.map +1 -0
- package/esm/LinePlotRenderer/configSchema.d.ts +2 -0
- package/esm/LinePlotRenderer/configSchema.js +11 -0
- package/esm/LinePlotRenderer/configSchema.js.map +1 -0
- package/esm/LinePlotRenderer/index.d.ts +3 -0
- package/esm/LinePlotRenderer/index.js +12 -0
- package/esm/LinePlotRenderer/index.js.map +1 -0
- package/esm/LinearWiggleDisplay/components/SetColorDialog.d.ts +14 -0
- package/esm/LinearWiggleDisplay/components/SetColorDialog.js +48 -0
- package/esm/LinearWiggleDisplay/components/SetColorDialog.js.map +1 -0
- package/esm/LinearWiggleDisplay/components/SetMinMaxDialog.d.ts +11 -0
- package/esm/LinearWiggleDisplay/components/SetMinMaxDialog.js +46 -0
- package/esm/LinearWiggleDisplay/components/SetMinMaxDialog.js.map +1 -0
- package/esm/LinearWiggleDisplay/components/Tooltip.d.ts +19 -0
- package/esm/LinearWiggleDisplay/components/Tooltip.js +34 -0
- package/esm/LinearWiggleDisplay/components/Tooltip.js.map +1 -0
- package/esm/LinearWiggleDisplay/components/WiggleDisplayComponent.d.ts +8 -0
- package/esm/LinearWiggleDisplay/components/WiggleDisplayComponent.js +29 -0
- package/esm/LinearWiggleDisplay/components/WiggleDisplayComponent.js.map +1 -0
- package/esm/LinearWiggleDisplay/components/YScaleBar.d.ts +7 -0
- package/esm/LinearWiggleDisplay/components/YScaleBar.js +9 -0
- package/esm/LinearWiggleDisplay/components/YScaleBar.js.map +1 -0
- package/esm/LinearWiggleDisplay/index.d.ts +7 -0
- package/esm/LinearWiggleDisplay/index.js +21 -0
- package/esm/LinearWiggleDisplay/index.js.map +1 -0
- package/esm/LinearWiggleDisplay/models/configSchema.d.ts +2 -0
- package/esm/LinearWiggleDisplay/models/configSchema.js +64 -0
- package/esm/LinearWiggleDisplay/models/configSchema.js.map +1 -0
- package/esm/LinearWiggleDisplay/models/model.d.ts +309 -0
- package/esm/LinearWiggleDisplay/models/model.js +449 -0
- package/esm/LinearWiggleDisplay/models/model.js.map +1 -0
- package/esm/MultiDensityRenderer/MultiDensityRenderer.d.ts +7 -0
- package/esm/MultiDensityRenderer/MultiDensityRenderer.js +36 -0
- package/esm/MultiDensityRenderer/MultiDensityRenderer.js.map +1 -0
- package/esm/MultiDensityRenderer/configSchema.d.ts +2 -0
- package/esm/MultiDensityRenderer/configSchema.js +5 -0
- package/esm/MultiDensityRenderer/configSchema.js.map +1 -0
- package/esm/MultiDensityRenderer/index.d.ts +3 -0
- package/esm/MultiDensityRenderer/index.js +12 -0
- package/esm/MultiDensityRenderer/index.js.map +1 -0
- package/esm/MultiLineRenderer/MultiLineRenderer.d.ts +7 -0
- package/esm/MultiLineRenderer/MultiLineRenderer.js +25 -0
- package/esm/MultiLineRenderer/MultiLineRenderer.js.map +1 -0
- package/esm/MultiLineRenderer/configSchema.d.ts +2 -0
- package/esm/MultiLineRenderer/configSchema.js +18 -0
- package/esm/MultiLineRenderer/configSchema.js.map +1 -0
- package/esm/MultiLineRenderer/index.d.ts +3 -0
- package/esm/MultiLineRenderer/index.js +12 -0
- package/esm/MultiLineRenderer/index.js.map +1 -0
- package/esm/MultiLinearWiggleDisplay/components/SetColorDialog.d.ts +10 -0
- package/esm/MultiLinearWiggleDisplay/components/SetColorDialog.js +162 -0
- package/esm/MultiLinearWiggleDisplay/components/SetColorDialog.js.map +1 -0
- package/esm/MultiLinearWiggleDisplay/components/SetMinMaxDialog.d.ts +11 -0
- package/esm/MultiLinearWiggleDisplay/components/SetMinMaxDialog.js +46 -0
- package/esm/MultiLinearWiggleDisplay/components/SetMinMaxDialog.js.map +1 -0
- package/esm/MultiLinearWiggleDisplay/components/Tooltip.d.ts +25 -0
- package/esm/MultiLinearWiggleDisplay/components/Tooltip.js +43 -0
- package/esm/MultiLinearWiggleDisplay/components/Tooltip.js.map +1 -0
- package/esm/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.d.ts +13 -0
- package/esm/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.js +99 -0
- package/esm/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.js.map +1 -0
- package/esm/MultiLinearWiggleDisplay/components/YScaleBar.d.ts +7 -0
- package/esm/MultiLinearWiggleDisplay/components/YScaleBar.js +9 -0
- package/esm/MultiLinearWiggleDisplay/components/YScaleBar.js.map +1 -0
- package/esm/MultiLinearWiggleDisplay/components/util.d.ts +10 -0
- package/esm/MultiLinearWiggleDisplay/components/util.js +31 -0
- package/esm/MultiLinearWiggleDisplay/components/util.js.map +1 -0
- package/esm/MultiLinearWiggleDisplay/index.d.ts +3 -0
- package/esm/MultiLinearWiggleDisplay/index.js +18 -0
- package/esm/MultiLinearWiggleDisplay/index.js.map +1 -0
- package/esm/MultiLinearWiggleDisplay/models/configSchema.d.ts +2 -0
- package/esm/MultiLinearWiggleDisplay/models/configSchema.js +74 -0
- package/esm/MultiLinearWiggleDisplay/models/configSchema.js.map +1 -0
- package/esm/MultiLinearWiggleDisplay/models/model.d.ts +339 -0
- package/esm/MultiLinearWiggleDisplay/models/model.js +570 -0
- package/esm/MultiLinearWiggleDisplay/models/model.js.map +1 -0
- package/esm/MultiQuantitativeTrack/index.d.ts +3 -0
- package/esm/MultiQuantitativeTrack/index.js +14 -0
- package/esm/MultiQuantitativeTrack/index.js.map +1 -0
- package/esm/MultiRowLineRenderer/MultiRowLineRenderer.d.ts +7 -0
- package/esm/MultiRowLineRenderer/MultiRowLineRenderer.js +33 -0
- package/esm/MultiRowLineRenderer/MultiRowLineRenderer.js.map +1 -0
- package/esm/MultiRowLineRenderer/configSchema.d.ts +2 -0
- package/esm/MultiRowLineRenderer/configSchema.js +18 -0
- package/esm/MultiRowLineRenderer/configSchema.js.map +1 -0
- package/esm/MultiRowLineRenderer/index.d.ts +3 -0
- package/esm/MultiRowLineRenderer/index.js +12 -0
- package/esm/MultiRowLineRenderer/index.js.map +1 -0
- package/esm/MultiRowXYPlotRenderer/MultiRowXYPlotRenderer.d.ts +7 -0
- package/esm/MultiRowXYPlotRenderer/MultiRowXYPlotRenderer.js +39 -0
- package/esm/MultiRowXYPlotRenderer/MultiRowXYPlotRenderer.js.map +1 -0
- package/esm/MultiRowXYPlotRenderer/configSchema.d.ts +2 -0
- package/esm/MultiRowXYPlotRenderer/configSchema.js +26 -0
- package/esm/MultiRowXYPlotRenderer/configSchema.js.map +1 -0
- package/esm/MultiRowXYPlotRenderer/index.d.ts +3 -0
- package/esm/MultiRowXYPlotRenderer/index.js +12 -0
- package/esm/MultiRowXYPlotRenderer/index.js.map +1 -0
- package/esm/MultiWiggleAdapter/MultiWiggleAdapter.d.ts +28 -0
- package/esm/MultiWiggleAdapter/MultiWiggleAdapter.js +87 -0
- package/esm/MultiWiggleAdapter/MultiWiggleAdapter.js.map +1 -0
- package/esm/MultiWiggleAdapter/configSchema.d.ts +2 -0
- package/esm/MultiWiggleAdapter/configSchema.js +12 -0
- package/esm/MultiWiggleAdapter/configSchema.js.map +1 -0
- package/esm/MultiWiggleAdapter/index.d.ts +3 -0
- package/esm/MultiWiggleAdapter/index.js +15 -0
- package/esm/MultiWiggleAdapter/index.js.map +1 -0
- package/esm/MultiWiggleAddTrackWidget/AddTrackWorkflow.d.ts +5 -0
- package/esm/MultiWiggleAddTrackWidget/AddTrackWorkflow.js +87 -0
- package/esm/MultiWiggleAddTrackWidget/AddTrackWorkflow.js.map +1 -0
- package/esm/MultiWiggleAddTrackWidget/index.d.ts +3 -0
- package/esm/MultiWiggleAddTrackWidget/index.js +12 -0
- package/esm/MultiWiggleAddTrackWidget/index.js.map +1 -0
- package/esm/MultiWiggleRendering.d.ts +21 -0
- package/esm/MultiWiggleRendering.js +75 -0
- package/esm/MultiWiggleRendering.js.map +1 -0
- package/esm/MultiXYPlotRenderer/MultiXYPlotRenderer.d.ts +7 -0
- package/esm/MultiXYPlotRenderer/MultiXYPlotRenderer.js +28 -0
- package/esm/MultiXYPlotRenderer/MultiXYPlotRenderer.js.map +1 -0
- package/esm/MultiXYPlotRenderer/configSchema.d.ts +2 -0
- package/esm/MultiXYPlotRenderer/configSchema.js +26 -0
- package/esm/MultiXYPlotRenderer/configSchema.js.map +1 -0
- package/esm/MultiXYPlotRenderer/index.d.ts +3 -0
- package/esm/MultiXYPlotRenderer/index.js +12 -0
- package/esm/MultiXYPlotRenderer/index.js.map +1 -0
- package/esm/QuantitativeTrack/index.d.ts +3 -0
- package/esm/QuantitativeTrack/index.js +14 -0
- package/esm/QuantitativeTrack/index.js.map +1 -0
- package/esm/Tooltip.d.ts +20 -0
- package/esm/Tooltip.js +71 -0
- package/esm/Tooltip.js.map +1 -0
- package/esm/WiggleBaseRenderer.d.ts +54 -0
- package/esm/WiggleBaseRenderer.js +36 -0
- package/esm/WiggleBaseRenderer.js.map +1 -0
- package/esm/WiggleRPC/rpcMethods.d.ts +47 -0
- package/esm/WiggleRPC/rpcMethods.js +112 -0
- package/esm/WiggleRPC/rpcMethods.js.map +1 -0
- package/esm/WiggleRendering.d.ts +16 -0
- package/esm/WiggleRendering.js +36 -0
- package/esm/WiggleRendering.js.map +1 -0
- package/esm/XYPlotRenderer/XYPlotRenderer.d.ts +7 -0
- package/esm/XYPlotRenderer/XYPlotRenderer.js +26 -0
- package/esm/XYPlotRenderer/XYPlotRenderer.js.map +1 -0
- package/esm/XYPlotRenderer/configSchema.d.ts +2 -0
- package/esm/XYPlotRenderer/configSchema.js +26 -0
- package/esm/XYPlotRenderer/configSchema.js.map +1 -0
- package/esm/XYPlotRenderer/index.d.ts +7 -0
- package/esm/XYPlotRenderer/index.js +13 -0
- package/esm/XYPlotRenderer/index.js.map +1 -0
- package/esm/configSchema.d.ts +2 -0
- package/esm/configSchema.js +41 -0
- package/esm/configSchema.js.map +1 -0
- package/esm/drawxy.d.ts +50 -0
- package/esm/drawxy.js +286 -0
- package/esm/drawxy.js.map +1 -0
- package/esm/index.d.ts +975 -0
- package/esm/index.js +90 -0
- package/esm/index.js.map +1 -0
- package/esm/util.d.ts +74 -0
- package/esm/util.js +231 -0
- package/esm/util.js.map +1 -0
- package/package.json +32 -18
- package/src/BigWigAdapter/BigWigAdapter.ts +53 -35
- package/src/BigWigAdapter/__snapshots__/BigWigAdapter.test.ts.snap +10 -10
- package/src/BigWigAdapter/configSchema.ts +5 -0
- package/src/BigWigAdapter/index.ts +19 -1
- package/src/CreateMultiWiggleExtension/ConfirmDialog.tsx +66 -0
- package/src/CreateMultiWiggleExtension/index.ts +57 -0
- package/src/DensityRenderer/DensityRenderer.test.js +8 -2
- package/src/DensityRenderer/DensityRenderer.ts +14 -0
- package/src/DensityRenderer/__snapshots__/DensityRenderer.test.js.snap +8 -0
- package/src/{LinePlotRenderer/index.js → DensityRenderer/configSchema.ts} +5 -5
- package/src/DensityRenderer/index.ts +14 -53
- package/src/LinePlotRenderer/LinePlotRenderer.ts +19 -0
- package/src/LinePlotRenderer/configSchema.ts +16 -0
- package/src/LinePlotRenderer/index.ts +16 -0
- package/src/LinearWiggleDisplay/components/SetColorDialog.tsx +26 -31
- package/src/LinearWiggleDisplay/components/SetMinMaxDialog.tsx +13 -11
- package/src/LinearWiggleDisplay/components/Tooltip.tsx +6 -121
- package/src/LinearWiggleDisplay/components/WiggleDisplayComponent.tsx +9 -4
- package/src/LinearWiggleDisplay/index.ts +24 -3
- package/src/LinearWiggleDisplay/models/model.tsx +139 -224
- package/src/MultiDensityRenderer/MultiDensityRenderer.ts +39 -0
- package/src/MultiDensityRenderer/configSchema.ts +10 -0
- package/src/MultiDensityRenderer/index.ts +16 -0
- package/src/MultiLineRenderer/MultiLineRenderer.ts +29 -0
- package/src/MultiLineRenderer/configSchema.ts +24 -0
- package/src/MultiLineRenderer/index.ts +17 -0
- package/src/MultiLinearWiggleDisplay/components/SetColorDialog.tsx +322 -0
- package/src/MultiLinearWiggleDisplay/components/SetMinMaxDialog.tsx +113 -0
- package/src/MultiLinearWiggleDisplay/components/Tooltip.tsx +76 -0
- package/src/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.tsx +261 -0
- package/src/MultiLinearWiggleDisplay/components/YScaleBar.tsx +25 -0
- package/src/MultiLinearWiggleDisplay/components/declare.d.ts +1 -0
- package/src/MultiLinearWiggleDisplay/components/util.test.ts +69 -0
- package/src/MultiLinearWiggleDisplay/components/util.ts +33 -0
- package/src/MultiLinearWiggleDisplay/index.ts +20 -0
- package/src/MultiLinearWiggleDisplay/models/configSchema.ts +94 -0
- package/src/MultiLinearWiggleDisplay/models/model.tsx +721 -0
- package/src/MultiQuantitativeTrack/index.ts +26 -0
- package/src/MultiRowLineRenderer/MultiRowLineRenderer.ts +36 -0
- package/src/MultiRowLineRenderer/configSchema.ts +25 -0
- package/src/MultiRowLineRenderer/index.ts +16 -0
- package/src/MultiRowXYPlotRenderer/MultiRowXYPlotRenderer.ts +43 -0
- package/src/MultiRowXYPlotRenderer/configSchema.ts +33 -0
- package/src/MultiRowXYPlotRenderer/index.ts +16 -0
- package/src/MultiWiggleAdapter/MultiWiggleAdapter.ts +120 -0
- package/src/MultiWiggleAdapter/configSchema.ts +16 -0
- package/src/MultiWiggleAdapter/index.ts +20 -0
- package/src/MultiWiggleAdapter/test_data/volvox.bw +0 -0
- package/src/MultiWiggleAddTrackWidget/AddTrackWorkflow.tsx +130 -0
- package/src/MultiWiggleAddTrackWidget/index.ts +17 -0
- package/src/MultiWiggleRendering.tsx +125 -0
- package/src/MultiXYPlotRenderer/MultiXYPlotRenderer.ts +32 -0
- package/src/MultiXYPlotRenderer/configSchema.ts +31 -0
- package/src/MultiXYPlotRenderer/index.ts +17 -0
- package/src/QuantitativeTrack/index.ts +26 -0
- package/src/Tooltip.tsx +123 -0
- package/src/WiggleBaseRenderer.tsx +17 -11
- package/src/WiggleRPC/rpcMethods.ts +68 -17
- package/src/WiggleRendering.tsx +12 -18
- package/src/XYPlotRenderer/XYPlotRenderer.test.js +3 -1
- package/src/XYPlotRenderer/XYPlotRenderer.ts +19 -124
- package/src/XYPlotRenderer/__snapshots__/XYPlotRenderer.test.js.snap +8 -0
- package/src/XYPlotRenderer/configSchema.ts +32 -0
- package/src/XYPlotRenderer/index.ts +16 -10
- package/src/__snapshots__/WiggleRendering.test.js.snap +0 -2
- package/src/configSchema.ts +0 -28
- package/src/declare.d.ts +0 -1
- package/src/drawxy.ts +387 -0
- package/src/index.ts +75 -129
- package/src/util.ts +174 -0
- package/dist/BigWigAdapter/BigWigAdapter.test.js +0 -157
- package/dist/DensityRenderer/DensityRenderer.test.js +0 -88
- package/dist/WiggleRendering.test.js +0 -52
- package/dist/XYPlotRenderer/XYPlotRenderer.test.js +0 -87
- package/dist/declare.d.js +0 -1
- package/dist/index.test.js +0 -24
- package/dist/util.test.js +0 -66
- package/src/LinePlotRenderer/LinePlotRenderer.js +0 -91
- package/src/LinePlotRenderer/configSchema.js +0 -68
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import React, { lazy } from 'react';
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import { addDisposer, getEnv, isAlive, types } from 'mobx-state-tree';
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import { autorun, when } from 'mobx';
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import { axisPropsFromTickScale } from 'react-d3-axis-mod';
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import deepEqual from 'fast-deep-equal';
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// jbrowse imports
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import { ConfigurationReference, getConf, readConfObject, } from '@jbrowse/core/configuration';
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import { getSession, getContainingView, isSelectionContainer, } from '@jbrowse/core/util';
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import { getRpcSessionId } from '@jbrowse/core/util/tracks';
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import { set1 as colors } from '@jbrowse/core/ui/colors';
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import { BaseLinearDisplay, } from '@jbrowse/plugin-linear-genome-view';
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// locals
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import { getNiceDomain, getScale, getStats, statsAutorun, YSCALEBAR_LABEL_OFFSET, } from '../../util';
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import Tooltip from '../components/Tooltip';
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import { StatBars } from '../components/WiggleDisplayComponent';
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const randomColor = () => '#000000'.replace(/0/g, () => (~~(Math.random() * 16)).toString(16));
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// lazt components
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const SetMinMaxDlg = lazy(() => import('../components/SetMinMaxDialog'));
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const SetColorDlg = lazy(() => import('../components/SetColorDialog'));
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// using a map because it preserves order
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const rendererTypes = new Map([
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['xyplot', 'MultiXYPlotRenderer'],
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['multirowxy', 'MultiRowXYPlotRenderer'],
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['multirowdensity', 'MultiDensityRenderer'],
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['multiline', 'MultiLineRenderer'],
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['multirowline', 'MultiRowLineRenderer'],
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]);
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const stateModelFactory = (pluginManager, configSchema) => types
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.compose('MultiLinearWiggleDisplay', BaseLinearDisplay, types.model({
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type: types.literal('MultiLinearWiggleDisplay'),
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configuration: ConfigurationReference(configSchema),
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selectedRendering: types.optional(types.string, ''),
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resolution: types.optional(types.number, 1),
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fill: types.maybe(types.boolean),
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minSize: types.maybe(types.number),
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height: 200,
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color: types.maybe(types.string),
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posColor: types.maybe(types.string),
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negColor: types.maybe(types.string),
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summaryScoreMode: types.maybe(types.string),
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rendererTypeNameState: types.maybe(types.string),
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scale: types.maybe(types.string),
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autoscale: types.maybe(types.string),
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displayCrossHatches: types.maybe(types.boolean),
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layout: types.optional(types.frozen(), []),
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constraints: types.optional(types.model({
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max: types.maybe(types.number),
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min: types.maybe(types.number),
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}), {}),
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}))
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.volatile(() => ({
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statsReady: false,
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message: undefined,
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stats: { scoreMin: 0, scoreMax: 50 },
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statsRegion: undefined,
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statsFetchInProgress: undefined,
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featureUnderMouseVolatile: undefined,
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sourcesVolatile: undefined,
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}))
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.actions(self => ({
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setLayout(layout) {
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self.layout = layout;
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},
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clearLayout() {
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self.layout = [];
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},
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updateStats(stats) {
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const { scoreMin, scoreMax } = stats;
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const EPSILON = 0.000001;
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if (Math.abs(self.stats.scoreMax - scoreMax) > EPSILON ||
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Math.abs(self.stats.scoreMin - scoreMin) > EPSILON) {
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self.stats = { scoreMin, scoreMax };
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self.statsReady = true;
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}
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},
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setSources(sources) {
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if (!deepEqual(sources, self.sourcesVolatile)) {
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self.sourcesVolatile = sources;
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}
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},
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setColor(color) {
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self.color = color;
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},
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setPosColor(color) {
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self.posColor = color;
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},
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setNegColor(color) {
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self.negColor = color;
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},
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setLoading(aborter) {
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const { statsFetchInProgress: statsFetch } = self;
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if (statsFetch !== undefined && !statsFetch.signal.aborted) {
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statsFetch.abort();
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}
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self.statsFetchInProgress = aborter;
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},
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// this overrides the BaseLinearDisplayModel to avoid popping up a
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// feature detail display, but still sets the feature selection on the
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// model so listeners can detect a click
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selectFeature(feature) {
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const session = getSession(self);
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if (isSelectionContainer(session)) {
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session.setSelection(feature);
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}
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},
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setFeatureUnderMouse(f) {
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self.featureUnderMouseVolatile = f;
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},
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setResolution(res) {
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self.resolution = res;
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},
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setFill(fill) {
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if (fill === 0) {
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self.fill = true;
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self.minSize = 0;
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}
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else if (fill === 1) {
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self.fill = false;
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self.minSize = 1;
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}
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else if (fill === 2) {
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self.fill = false;
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self.minSize = 2;
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}
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},
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toggleLogScale() {
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if (self.scale !== 'log') {
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self.scale = 'log';
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}
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else {
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self.scale = 'linear';
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}
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},
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setScaleType(scale) {
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self.scale = scale;
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},
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setSummaryScoreMode(val) {
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self.summaryScoreMode = val;
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},
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setAutoscale(val) {
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self.autoscale = val;
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},
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setMaxScore(val) {
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self.constraints.max = val;
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},
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setRendererType(val) {
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self.rendererTypeNameState = val;
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},
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setMinScore(val) {
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self.constraints.min = val;
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},
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toggleCrossHatches() {
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self.displayCrossHatches = !self.displayCrossHatches;
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},
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setCrossHatches(cross) {
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self.displayCrossHatches = cross;
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},
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}))
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.views(self => ({
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get featureUnderMouse() {
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return self.featureUnderMouseVolatile;
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},
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get TooltipComponent() {
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return Tooltip;
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},
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get adapterTypeName() {
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return self.adapterConfig.type;
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},
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get rendererTypeNameSimple() {
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return self.rendererTypeNameState || getConf(self, 'defaultRendering');
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},
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get rendererTypeName() {
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const name = this.rendererTypeNameSimple;
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const rendererType = rendererTypes.get(name);
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if (!rendererType) {
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throw new Error(`unknown renderer ${name}`);
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}
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return rendererType;
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},
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// subclasses can define these, as snpcoverage track does
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get filters() {
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return undefined;
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},
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get scaleType() {
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var _a;
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return (_a = self.scale) !== null && _a !== void 0 ? _a : getConf(self, 'scaleType');
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},
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get maxScore() {
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var _a;
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return (_a = self.constraints.max) !== null && _a !== void 0 ? _a : getConf(self, 'maxScore');
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},
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get minScore() {
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var _a;
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return (_a = self.constraints.min) !== null && _a !== void 0 ? _a : getConf(self, 'minScore');
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},
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}))
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.views(self => ({
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get rendererConfig() {
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const configBlob = getConf(self, ['renderers', self.rendererTypeName]) || {};
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const { color, displayCrossHatches, fill, minSize, negColor, posColor, summaryScoreMode, scaleType, } = self;
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return self.rendererType.configSchema.create({
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...configBlob,
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...(scaleType ? { scaleType } : {}),
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...(fill !== undefined ? { filled: fill } : {}),
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...(displayCrossHatches !== undefined
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? { displayCrossHatches }
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: {}),
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...(summaryScoreMode !== undefined ? { summaryScoreMode } : {}),
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...(color !== undefined ? { color } : {}),
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...(negColor !== undefined ? { negColor } : {}),
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...(posColor !== undefined ? { posColor } : {}),
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...(minSize !== undefined ? { minSize } : {}),
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}, getEnv(self));
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},
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}))
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.views(self => ({
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// everything except density gets a numerical scalebar
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get needsScalebar() {
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return (self.rendererTypeName === 'MultiXYPlotRenderer' ||
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self.rendererTypeName === 'MultiRowXYPlotRenderer' ||
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self.rendererTypeName === 'MultiLineRenderer' ||
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self.rendererTypeName === 'MultiRowLineRenderer');
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},
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get needsFullHeightScalebar() {
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return (self.rendererTypeName === 'MultiXYPlotRenderer' ||
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self.rendererTypeName === 'MultiLineRenderer');
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},
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get isMultiRow() {
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return (self.rendererTypeName === 'MultiRowXYPlotRenderer' ||
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self.rendererTypeName === 'MultiRowLineRenderer' ||
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self.rendererTypeName === 'MultiDensityRenderer');
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},
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// can be used to give it a "color scale" like a R heatmap, not
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// implemented like this yet but flag can be used for this
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get needsCustomLegend() {
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return self.rendererTypeName === 'MultiDensityRenderer';
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},
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get canHaveFill() {
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return (self.rendererTypeName === 'MultiXYPlotRenderer' ||
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self.rendererTypeName === 'MultiRowXYPlotRenderer');
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},
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242
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// the multirowxy and multiline don't need to use colors on the legend
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243
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// boxes since their track is drawn with the color. sort of a stylistic choice
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get renderColorBoxes() {
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return !(self.rendererTypeName === 'MultiRowLineRenderer' ||
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self.rendererTypeName === 'MultiRowXYPlotRenderer');
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},
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// positions multi-row below the tracklabel even if using overlap
|
|
249
|
+
// tracklabels for everything else
|
|
250
|
+
get prefersOffset() {
|
|
251
|
+
return this.isMultiRow;
|
|
252
|
+
},
|
|
253
|
+
get sources() {
|
|
254
|
+
var _a;
|
|
255
|
+
const sources = Object.fromEntries(((_a = self.sourcesVolatile) === null || _a === void 0 ? void 0 : _a.map(s => [s.name, s])) || []);
|
|
256
|
+
const iter = self.layout.length ? self.layout : self.sourcesVolatile;
|
|
257
|
+
return iter === null || iter === void 0 ? void 0 : iter.map(s => ({
|
|
258
|
+
...sources[s.name],
|
|
259
|
+
...s,
|
|
260
|
+
})).map((s, i) => ({
|
|
261
|
+
...s,
|
|
262
|
+
color: s.color ||
|
|
263
|
+
(!this.isMultiRow ? colors[i] || randomColor() : 'blue'),
|
|
264
|
+
}));
|
|
265
|
+
},
|
|
266
|
+
}))
|
|
267
|
+
.views(self => {
|
|
268
|
+
let oldDomain = [0, 0];
|
|
269
|
+
return {
|
|
270
|
+
get filled() {
|
|
271
|
+
const { fill, rendererConfig } = self;
|
|
272
|
+
return fill !== null && fill !== void 0 ? fill : readConfObject(rendererConfig, 'filled');
|
|
273
|
+
},
|
|
274
|
+
get summaryScoreModeSetting() {
|
|
275
|
+
const { summaryScoreMode: scoreMode, rendererConfig } = self;
|
|
276
|
+
return scoreMode !== null && scoreMode !== void 0 ? scoreMode : readConfObject(rendererConfig, 'summaryScoreMode');
|
|
277
|
+
},
|
|
278
|
+
get domain() {
|
|
279
|
+
const { stats, scaleType, minScore, maxScore } = self;
|
|
280
|
+
const { scoreMin, scoreMax } = stats;
|
|
281
|
+
const ret = getNiceDomain({
|
|
282
|
+
domain: [scoreMin, scoreMax],
|
|
283
|
+
bounds: [minScore, maxScore],
|
|
284
|
+
scaleType,
|
|
285
|
+
});
|
|
286
|
+
// avoid weird scalebar if log value and empty region displayed
|
|
287
|
+
if (scaleType === 'log' && ret[1] === Number.MIN_VALUE) {
|
|
288
|
+
return [0, Number.MIN_VALUE];
|
|
289
|
+
}
|
|
290
|
+
// avoid returning a new object if it matches the old value
|
|
291
|
+
if (!deepEqual(oldDomain, ret)) {
|
|
292
|
+
oldDomain = ret;
|
|
293
|
+
}
|
|
294
|
+
return oldDomain;
|
|
295
|
+
},
|
|
296
|
+
get scaleOpts() {
|
|
297
|
+
const { scaleType, stats } = self;
|
|
298
|
+
return {
|
|
299
|
+
autoscaleType: this.autoscaleType,
|
|
300
|
+
domain: this.domain,
|
|
301
|
+
stats,
|
|
302
|
+
scaleType,
|
|
303
|
+
inverted: getConf(self, 'inverted'),
|
|
304
|
+
};
|
|
305
|
+
},
|
|
306
|
+
get autoscaleType() {
|
|
307
|
+
var _a;
|
|
308
|
+
return (_a = self.autoscale) !== null && _a !== void 0 ? _a : getConf(self, 'autoscale');
|
|
309
|
+
},
|
|
310
|
+
get displayCrossHatchesSetting() {
|
|
311
|
+
const { displayCrossHatches, rendererConfig } = self;
|
|
312
|
+
return (displayCrossHatches !== null && displayCrossHatches !== void 0 ? displayCrossHatches : readConfObject(rendererConfig, 'displayCrossHatches'));
|
|
313
|
+
},
|
|
314
|
+
get rowHeight() {
|
|
315
|
+
const { sources, height, isMultiRow } = self;
|
|
316
|
+
return isMultiRow ? height / ((sources === null || sources === void 0 ? void 0 : sources.length) || 1) : height;
|
|
317
|
+
},
|
|
318
|
+
get rowHeightTooSmallForScalebar() {
|
|
319
|
+
return this.rowHeight < 70;
|
|
320
|
+
},
|
|
321
|
+
get useMinimalTicks() {
|
|
322
|
+
return (getConf(self, 'minimalTicks') || this.rowHeightTooSmallForScalebar);
|
|
323
|
+
},
|
|
324
|
+
};
|
|
325
|
+
})
|
|
326
|
+
.views(self => ({
|
|
327
|
+
get ticks() {
|
|
328
|
+
const { scaleType, domain, isMultiRow, rowHeight, useMinimalTicks } = self;
|
|
329
|
+
const offset = isMultiRow ? 0 : YSCALEBAR_LABEL_OFFSET;
|
|
330
|
+
const ticks = axisPropsFromTickScale(getScale({
|
|
331
|
+
scaleType,
|
|
332
|
+
domain,
|
|
333
|
+
range: [rowHeight - offset, offset],
|
|
334
|
+
inverted: getConf(self, 'inverted'),
|
|
335
|
+
}), 4);
|
|
336
|
+
return useMinimalTicks ? { ...ticks, values: domain } : ticks;
|
|
337
|
+
},
|
|
338
|
+
get colors() {
|
|
339
|
+
return [
|
|
340
|
+
'red',
|
|
341
|
+
'blue',
|
|
342
|
+
'green',
|
|
343
|
+
'orange',
|
|
344
|
+
'purple',
|
|
345
|
+
'cyan',
|
|
346
|
+
'pink',
|
|
347
|
+
'darkblue',
|
|
348
|
+
'darkred',
|
|
349
|
+
'pink',
|
|
350
|
+
];
|
|
351
|
+
},
|
|
352
|
+
get adapterCapabilities() {
|
|
353
|
+
const { adapterTypeName } = self;
|
|
354
|
+
return pluginManager.getAdapterType(adapterTypeName).adapterCapabilities;
|
|
355
|
+
},
|
|
356
|
+
}))
|
|
357
|
+
.views(self => {
|
|
358
|
+
const { renderProps: superRenderProps } = self;
|
|
359
|
+
return {
|
|
360
|
+
renderProps() {
|
|
361
|
+
const superProps = superRenderProps();
|
|
362
|
+
const { displayCrossHatches, filters, height, resolution, rpcDriverName, scaleOpts, sources, statsReady, ticks, rendererConfig: config, } = self;
|
|
363
|
+
return {
|
|
364
|
+
...superProps,
|
|
365
|
+
notReady: superProps.notReady || !sources || !statsReady,
|
|
366
|
+
displayModel: self,
|
|
367
|
+
config,
|
|
368
|
+
displayCrossHatches,
|
|
369
|
+
filters,
|
|
370
|
+
height,
|
|
371
|
+
resolution,
|
|
372
|
+
rpcDriverName,
|
|
373
|
+
scaleOpts,
|
|
374
|
+
sources,
|
|
375
|
+
ticks,
|
|
376
|
+
onMouseMove: (_, f) => self.setFeatureUnderMouse(f),
|
|
377
|
+
onMouseLeave: () => self.setFeatureUnderMouse(undefined),
|
|
378
|
+
};
|
|
379
|
+
},
|
|
380
|
+
get hasResolution() {
|
|
381
|
+
return self.adapterCapabilities.includes('hasResolution');
|
|
382
|
+
},
|
|
383
|
+
get hasGlobalStats() {
|
|
384
|
+
return self.adapterCapabilities.includes('hasGlobalStats');
|
|
385
|
+
},
|
|
386
|
+
get fillSetting() {
|
|
387
|
+
if (self.filled) {
|
|
388
|
+
return 0;
|
|
389
|
+
}
|
|
390
|
+
else if (!self.filled && self.minSize === 1) {
|
|
391
|
+
return 1;
|
|
392
|
+
}
|
|
393
|
+
else {
|
|
394
|
+
return 2;
|
|
395
|
+
}
|
|
396
|
+
},
|
|
397
|
+
};
|
|
398
|
+
})
|
|
399
|
+
.views(self => {
|
|
400
|
+
const { trackMenuItems: superTrackMenuItems } = self;
|
|
401
|
+
const hasRenderings = getConf(self, 'defaultRendering');
|
|
402
|
+
return {
|
|
403
|
+
trackMenuItems() {
|
|
404
|
+
return [
|
|
405
|
+
...superTrackMenuItems(),
|
|
406
|
+
...(self.hasResolution
|
|
407
|
+
? [
|
|
408
|
+
{
|
|
409
|
+
label: 'Resolution',
|
|
410
|
+
subMenu: [
|
|
411
|
+
{
|
|
412
|
+
label: 'Finer resolution',
|
|
413
|
+
onClick: () => self.setResolution(self.resolution * 5),
|
|
414
|
+
},
|
|
415
|
+
{
|
|
416
|
+
label: 'Coarser resolution',
|
|
417
|
+
onClick: () => self.setResolution(self.resolution / 5),
|
|
418
|
+
},
|
|
419
|
+
],
|
|
420
|
+
},
|
|
421
|
+
{
|
|
422
|
+
label: 'Summary score mode',
|
|
423
|
+
subMenu: ['min', 'max', 'avg', 'whiskers'].map(elt => ({
|
|
424
|
+
label: elt,
|
|
425
|
+
type: 'radio',
|
|
426
|
+
checked: self.summaryScoreModeSetting === elt,
|
|
427
|
+
onClick: () => self.setSummaryScoreMode(elt),
|
|
428
|
+
})),
|
|
429
|
+
},
|
|
430
|
+
]
|
|
431
|
+
: []),
|
|
432
|
+
...(self.canHaveFill
|
|
433
|
+
? [
|
|
434
|
+
{
|
|
435
|
+
label: 'Fill mode',
|
|
436
|
+
subMenu: ['filled', 'no fill', 'no fill w/ emphasis'].map((elt, idx) => ({
|
|
437
|
+
label: elt,
|
|
438
|
+
type: 'radio',
|
|
439
|
+
checked: self.fillSetting === idx,
|
|
440
|
+
onClick: () => self.setFill(idx),
|
|
441
|
+
})),
|
|
442
|
+
},
|
|
443
|
+
]
|
|
444
|
+
: []),
|
|
445
|
+
{
|
|
446
|
+
label: self.scaleType === 'log' ? 'Set linear scale' : 'Set log scale',
|
|
447
|
+
onClick: () => self.toggleLogScale(),
|
|
448
|
+
},
|
|
449
|
+
...(self.needsScalebar
|
|
450
|
+
? [
|
|
451
|
+
{
|
|
452
|
+
type: 'checkbox',
|
|
453
|
+
label: 'Draw cross hatches',
|
|
454
|
+
checked: self.displayCrossHatchesSetting,
|
|
455
|
+
onClick: () => self.toggleCrossHatches(),
|
|
456
|
+
},
|
|
457
|
+
]
|
|
458
|
+
: []),
|
|
459
|
+
...(hasRenderings
|
|
460
|
+
? [
|
|
461
|
+
{
|
|
462
|
+
label: 'Renderer type',
|
|
463
|
+
subMenu: [
|
|
464
|
+
'xyplot',
|
|
465
|
+
'multirowxy',
|
|
466
|
+
'multirowdensity',
|
|
467
|
+
'multiline',
|
|
468
|
+
'multirowline',
|
|
469
|
+
].map(key => ({
|
|
470
|
+
label: key,
|
|
471
|
+
type: 'radio',
|
|
472
|
+
checked: self.rendererTypeNameSimple === key,
|
|
473
|
+
onClick: () => self.setRendererType(key),
|
|
474
|
+
})),
|
|
475
|
+
},
|
|
476
|
+
]
|
|
477
|
+
: []),
|
|
478
|
+
{
|
|
479
|
+
label: 'Autoscale type',
|
|
480
|
+
subMenu: [
|
|
481
|
+
['local', 'Local'],
|
|
482
|
+
...(self.hasGlobalStats
|
|
483
|
+
? [
|
|
484
|
+
['global', 'Global'],
|
|
485
|
+
['globalsd', 'Global ± 3σ'],
|
|
486
|
+
]
|
|
487
|
+
: []),
|
|
488
|
+
['localsd', 'Local ± 3σ'],
|
|
489
|
+
].map(([val, label]) => {
|
|
490
|
+
return {
|
|
491
|
+
label,
|
|
492
|
+
type: 'radio',
|
|
493
|
+
checked: self.autoscaleType === val,
|
|
494
|
+
onClick: () => self.setAutoscale(val),
|
|
495
|
+
};
|
|
496
|
+
}),
|
|
497
|
+
},
|
|
498
|
+
{
|
|
499
|
+
label: 'Set min/max score...',
|
|
500
|
+
onClick: () => {
|
|
501
|
+
const session = getSession(self);
|
|
502
|
+
session.queueDialog(handleClose => [
|
|
503
|
+
SetMinMaxDlg,
|
|
504
|
+
{ model: self, handleClose },
|
|
505
|
+
]);
|
|
506
|
+
},
|
|
507
|
+
},
|
|
508
|
+
{
|
|
509
|
+
label: 'Edit colors/arrangement...',
|
|
510
|
+
onClick: () => {
|
|
511
|
+
getSession(self).queueDialog(handleClose => [
|
|
512
|
+
SetColorDlg,
|
|
513
|
+
{ model: self, handleClose },
|
|
514
|
+
]);
|
|
515
|
+
},
|
|
516
|
+
},
|
|
517
|
+
];
|
|
518
|
+
},
|
|
519
|
+
};
|
|
520
|
+
})
|
|
521
|
+
.actions(self => {
|
|
522
|
+
const { reload: superReload, renderSvg: superRenderSvg } = self;
|
|
523
|
+
return {
|
|
524
|
+
// re-runs stats and refresh whole display on reload
|
|
525
|
+
async reload() {
|
|
526
|
+
self.setError();
|
|
527
|
+
const aborter = new AbortController();
|
|
528
|
+
let stats;
|
|
529
|
+
try {
|
|
530
|
+
self.setLoading(aborter);
|
|
531
|
+
stats = await getStats(self, {
|
|
532
|
+
signal: aborter.signal,
|
|
533
|
+
...self.renderProps(),
|
|
534
|
+
});
|
|
535
|
+
if (isAlive(self)) {
|
|
536
|
+
self.updateStats(stats);
|
|
537
|
+
superReload();
|
|
538
|
+
}
|
|
539
|
+
}
|
|
540
|
+
catch (e) {
|
|
541
|
+
self.setError(e);
|
|
542
|
+
}
|
|
543
|
+
},
|
|
544
|
+
afterAttach() {
|
|
545
|
+
statsAutorun(self);
|
|
546
|
+
addDisposer(self, autorun(async () => {
|
|
547
|
+
const { rpcManager } = getSession(self);
|
|
548
|
+
const { adapterConfig } = self;
|
|
549
|
+
const sessionId = getRpcSessionId(self);
|
|
550
|
+
const sources = (await rpcManager.call(sessionId, 'MultiWiggleGetSources', {
|
|
551
|
+
sessionId,
|
|
552
|
+
adapterConfig,
|
|
553
|
+
}));
|
|
554
|
+
if (isAlive(self)) {
|
|
555
|
+
self.setSources(sources);
|
|
556
|
+
}
|
|
557
|
+
}));
|
|
558
|
+
},
|
|
559
|
+
async renderSvg(opts) {
|
|
560
|
+
await when(() => self.statsReady && !!self.regionCannotBeRenderedText);
|
|
561
|
+
const { offsetPx } = getContainingView(self);
|
|
562
|
+
return (React.createElement(React.Fragment, null,
|
|
563
|
+
React.createElement("g", { id: "snpcov" }, await superRenderSvg(opts)),
|
|
564
|
+
React.createElement("g", { transform: `translate(${Math.max(-offsetPx, 0)})` },
|
|
565
|
+
React.createElement(StatBars, { model: self, orientation: "left", exportSVG: true }))));
|
|
566
|
+
},
|
|
567
|
+
};
|
|
568
|
+
});
|
|
569
|
+
export default stateModelFactory;
|
|
570
|
+
//# sourceMappingURL=model.js.map
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
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@@ -0,0 +1,14 @@
|
|
|
1
|
+
import { ConfigurationSchema } from '@jbrowse/core/configuration';
|
|
2
|
+
import { createBaseTrackConfig, createBaseTrackModel, } from '@jbrowse/core/pluggableElementTypes/models';
|
|
3
|
+
import TrackType from '@jbrowse/core/pluggableElementTypes/TrackType';
|
|
4
|
+
export default (pluginManager) => {
|
|
5
|
+
pluginManager.addTrackType(() => {
|
|
6
|
+
const configSchema = ConfigurationSchema('MultiQuantitativeTrack', {}, { baseConfiguration: createBaseTrackConfig(pluginManager) });
|
|
7
|
+
return new TrackType({
|
|
8
|
+
name: 'MultiQuantitativeTrack',
|
|
9
|
+
configSchema,
|
|
10
|
+
stateModel: createBaseTrackModel(pluginManager, 'MultiQuantitativeTrack', configSchema),
|
|
11
|
+
});
|
|
12
|
+
});
|
|
13
|
+
};
|
|
14
|
+
//# sourceMappingURL=index.js.map
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/MultiQuantitativeTrack/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AACjE,OAAO,EACL,qBAAqB,EACrB,oBAAoB,GACrB,MAAM,4CAA4C,CAAA;AACnD,OAAO,SAAS,MAAM,+CAA+C,CAAA;AAGrE,eAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,YAAY,CAAC,GAAG,EAAE;QAC9B,MAAM,YAAY,GAAG,mBAAmB,CACtC,wBAAwB,EACxB,EAAE,EACF,EAAE,iBAAiB,EAAE,qBAAqB,CAAC,aAAa,CAAC,EAAE,CAC5D,CAAA;QACD,OAAO,IAAI,SAAS,CAAC;YACnB,IAAI,EAAE,wBAAwB;YAC9B,YAAY;YACZ,UAAU,EAAE,oBAAoB,CAC9B,aAAa,EACb,wBAAwB,EACxB,YAAY,CACb;SACF,CAAC,CAAA;IACJ,CAAC,CAAC,CAAA;AACJ,CAAC,CAAA"}
|
|
@@ -0,0 +1,7 @@
|
|
|
1
|
+
import { Feature } from '@jbrowse/core/util';
|
|
2
|
+
import WiggleBaseRenderer, { MultiRenderArgsDeserialized as MultiArgs } from '../WiggleBaseRenderer';
|
|
3
|
+
export default class MultiRowLineRenderer extends WiggleBaseRenderer {
|
|
4
|
+
draw(ctx: CanvasRenderingContext2D, props: MultiArgs): Promise<{
|
|
5
|
+
reducedFeatures: Feature[];
|
|
6
|
+
}>;
|
|
7
|
+
}
|
|
@@ -0,0 +1,33 @@
|
|
|
1
|
+
import { groupBy } from '../util';
|
|
2
|
+
import { drawLine } from '../drawxy';
|
|
3
|
+
import WiggleBaseRenderer from '../WiggleBaseRenderer';
|
|
4
|
+
export default class MultiRowLineRenderer extends WiggleBaseRenderer {
|
|
5
|
+
// @ts-ignore
|
|
6
|
+
async draw(ctx, props) {
|
|
7
|
+
const { bpPerPx, sources, regions, features } = props;
|
|
8
|
+
const [region] = regions;
|
|
9
|
+
const groups = groupBy([...features.values()], f => f.get('source'));
|
|
10
|
+
const height = props.height / Object.keys(groups).length;
|
|
11
|
+
const width = (region.end - region.start) / bpPerPx;
|
|
12
|
+
let feats = [];
|
|
13
|
+
ctx.save();
|
|
14
|
+
sources.forEach(source => {
|
|
15
|
+
const { reducedFeatures } = drawLine(ctx, {
|
|
16
|
+
...props,
|
|
17
|
+
features: groups[source.name],
|
|
18
|
+
height,
|
|
19
|
+
colorCallback: () => source.color || 'blue',
|
|
20
|
+
});
|
|
21
|
+
ctx.strokeStyle = 'rgba(200,200,200,0.8)';
|
|
22
|
+
ctx.beginPath();
|
|
23
|
+
ctx.moveTo(0, height);
|
|
24
|
+
ctx.lineTo(width, height);
|
|
25
|
+
ctx.stroke();
|
|
26
|
+
ctx.translate(0, height);
|
|
27
|
+
feats = feats.concat(reducedFeatures);
|
|
28
|
+
});
|
|
29
|
+
ctx.restore();
|
|
30
|
+
return { reducedFeatures: feats };
|
|
31
|
+
}
|
|
32
|
+
}
|
|
33
|
+
//# sourceMappingURL=MultiRowLineRenderer.js.map
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
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