@jbrowse/plugin-wiggle 2.5.0 → 2.6.1

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.
Files changed (151) hide show
  1. package/dist/BigWigAdapter/BigWigAdapter.js +2 -1
  2. package/dist/BigWigAdapter/BigWigAdapter.js.map +1 -1
  3. package/dist/CreateMultiWiggleExtension/ConfirmDialog.d.ts +2 -1
  4. package/dist/LinearWiggleDisplay/components/SetColorDialog.d.ts +2 -1
  5. package/dist/LinearWiggleDisplay/components/Tooltip.d.ts +1 -1
  6. package/dist/LinearWiggleDisplay/components/WiggleDisplayComponent.d.ts +2 -1
  7. package/dist/LinearWiggleDisplay/index.js +27 -4
  8. package/dist/LinearWiggleDisplay/index.js.map +1 -1
  9. package/dist/LinearWiggleDisplay/models/configSchema.d.ts +18 -35
  10. package/dist/LinearWiggleDisplay/models/configSchema.js +6 -67
  11. package/dist/LinearWiggleDisplay/models/configSchema.js.map +1 -1
  12. package/dist/LinearWiggleDisplay/models/model.d.ts +147 -342
  13. package/dist/LinearWiggleDisplay/models/model.js +17 -432
  14. package/dist/LinearWiggleDisplay/models/model.js.map +1 -1
  15. package/dist/LinearWiggleDisplay/models/renderSvg.d.ts +4 -0
  16. package/dist/LinearWiggleDisplay/models/renderSvg.js +21 -0
  17. package/dist/LinearWiggleDisplay/models/renderSvg.js.map +1 -0
  18. package/dist/MultiDensityRenderer/MultiDensityRenderer.js +1 -1
  19. package/dist/MultiDensityRenderer/MultiDensityRenderer.js.map +1 -1
  20. package/dist/MultiLineRenderer/MultiLineRenderer.js +1 -1
  21. package/dist/MultiLineRenderer/MultiLineRenderer.js.map +1 -1
  22. package/dist/MultiLinearWiggleDisplay/components/DraggableDialog.d.ts +2 -1
  23. package/dist/MultiLinearWiggleDisplay/components/SetColorDialog.d.ts +2 -1
  24. package/dist/MultiLinearWiggleDisplay/components/SetColorDialog.js +2 -2
  25. package/dist/MultiLinearWiggleDisplay/components/SetColorDialog.js.map +1 -1
  26. package/dist/MultiLinearWiggleDisplay/components/Tooltip.d.ts +1 -1
  27. package/dist/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.d.ts +3 -2
  28. package/dist/MultiLinearWiggleDisplay/index.js +25 -2
  29. package/dist/MultiLinearWiggleDisplay/index.js.map +1 -1
  30. package/dist/MultiLinearWiggleDisplay/models/configSchema.d.ts +24 -44
  31. package/dist/MultiLinearWiggleDisplay/models/configSchema.js +6 -66
  32. package/dist/MultiLinearWiggleDisplay/models/configSchema.js.map +1 -1
  33. package/dist/MultiLinearWiggleDisplay/models/model.d.ts +263 -175
  34. package/dist/MultiLinearWiggleDisplay/models/model.js +335 -508
  35. package/dist/MultiLinearWiggleDisplay/models/model.js.map +1 -1
  36. package/dist/MultiLinearWiggleDisplay/models/renderSvg.d.ts +4 -0
  37. package/dist/MultiLinearWiggleDisplay/models/renderSvg.js +20 -0
  38. package/dist/MultiLinearWiggleDisplay/models/renderSvg.js.map +1 -0
  39. package/dist/MultiRowLineRenderer/MultiRowLineRenderer.js +1 -1
  40. package/dist/MultiRowLineRenderer/MultiRowLineRenderer.js.map +1 -1
  41. package/dist/MultiRowXYPlotRenderer/MultiRowXYPlotRenderer.js +1 -1
  42. package/dist/MultiRowXYPlotRenderer/MultiRowXYPlotRenderer.js.map +1 -1
  43. package/dist/MultiWiggleAddTrackWidget/AddTrackWorkflow.d.ts +2 -1
  44. package/dist/MultiWiggleAddTrackWidget/AddTrackWorkflow.js +1 -1
  45. package/dist/MultiWiggleAddTrackWidget/AddTrackWorkflow.js.map +1 -1
  46. package/dist/MultiWiggleRendering.d.ts +2 -1
  47. package/dist/MultiXYPlotRenderer/MultiXYPlotRenderer.js +3 -2
  48. package/dist/MultiXYPlotRenderer/MultiXYPlotRenderer.js.map +1 -1
  49. package/dist/Tooltip.d.ts +1 -1
  50. package/dist/WiggleBaseRenderer.d.ts +1 -1
  51. package/dist/WiggleRendering.d.ts +2 -1
  52. package/dist/index.d.ts +222 -198
  53. package/dist/shared/SetMinMaxDialog.d.ts +2 -1
  54. package/dist/shared/YScaleBar.d.ts +4 -2
  55. package/dist/shared/YScaleBar.js +1 -1
  56. package/dist/shared/YScaleBar.js.map +1 -1
  57. package/dist/shared/configShared.d.ts +85 -0
  58. package/dist/shared/configShared.js +84 -0
  59. package/dist/shared/configShared.js.map +1 -0
  60. package/dist/shared/modelShared.d.ts +576 -0
  61. package/dist/shared/modelShared.js +480 -0
  62. package/dist/shared/modelShared.js.map +1 -0
  63. package/dist/util.d.ts +0 -3
  64. package/dist/util.js +1 -11
  65. package/dist/util.js.map +1 -1
  66. package/esm/BigWigAdapter/BigWigAdapter.js +2 -1
  67. package/esm/BigWigAdapter/BigWigAdapter.js.map +1 -1
  68. package/esm/CreateMultiWiggleExtension/ConfirmDialog.d.ts +2 -1
  69. package/esm/LinearWiggleDisplay/components/SetColorDialog.d.ts +2 -1
  70. package/esm/LinearWiggleDisplay/components/Tooltip.d.ts +1 -1
  71. package/esm/LinearWiggleDisplay/components/WiggleDisplayComponent.d.ts +2 -1
  72. package/esm/LinearWiggleDisplay/index.js +2 -2
  73. package/esm/LinearWiggleDisplay/index.js.map +1 -1
  74. package/esm/LinearWiggleDisplay/models/configSchema.d.ts +18 -35
  75. package/esm/LinearWiggleDisplay/models/configSchema.js +3 -67
  76. package/esm/LinearWiggleDisplay/models/configSchema.js.map +1 -1
  77. package/esm/LinearWiggleDisplay/models/model.d.ts +147 -342
  78. package/esm/LinearWiggleDisplay/models/model.js +20 -435
  79. package/esm/LinearWiggleDisplay/models/model.js.map +1 -1
  80. package/esm/LinearWiggleDisplay/models/renderSvg.d.ts +4 -0
  81. package/esm/LinearWiggleDisplay/models/renderSvg.js +14 -0
  82. package/esm/LinearWiggleDisplay/models/renderSvg.js.map +1 -0
  83. package/esm/MultiDensityRenderer/MultiDensityRenderer.js +1 -1
  84. package/esm/MultiDensityRenderer/MultiDensityRenderer.js.map +1 -1
  85. package/esm/MultiLineRenderer/MultiLineRenderer.js +1 -1
  86. package/esm/MultiLineRenderer/MultiLineRenderer.js.map +1 -1
  87. package/esm/MultiLinearWiggleDisplay/components/DraggableDialog.d.ts +2 -1
  88. package/esm/MultiLinearWiggleDisplay/components/SetColorDialog.d.ts +2 -1
  89. package/esm/MultiLinearWiggleDisplay/components/SetColorDialog.js +1 -1
  90. package/esm/MultiLinearWiggleDisplay/components/SetColorDialog.js.map +1 -1
  91. package/esm/MultiLinearWiggleDisplay/components/Tooltip.d.ts +1 -1
  92. package/esm/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.d.ts +3 -2
  93. package/esm/MultiLinearWiggleDisplay/index.js +2 -2
  94. package/esm/MultiLinearWiggleDisplay/index.js.map +1 -1
  95. package/esm/MultiLinearWiggleDisplay/models/configSchema.d.ts +24 -44
  96. package/esm/MultiLinearWiggleDisplay/models/configSchema.js +3 -66
  97. package/esm/MultiLinearWiggleDisplay/models/configSchema.js.map +1 -1
  98. package/esm/MultiLinearWiggleDisplay/models/model.d.ts +263 -175
  99. package/esm/MultiLinearWiggleDisplay/models/model.js +337 -512
  100. package/esm/MultiLinearWiggleDisplay/models/model.js.map +1 -1
  101. package/esm/MultiLinearWiggleDisplay/models/renderSvg.d.ts +4 -0
  102. package/esm/MultiLinearWiggleDisplay/models/renderSvg.js +13 -0
  103. package/esm/MultiLinearWiggleDisplay/models/renderSvg.js.map +1 -0
  104. package/esm/MultiRowLineRenderer/MultiRowLineRenderer.js +1 -1
  105. package/esm/MultiRowLineRenderer/MultiRowLineRenderer.js.map +1 -1
  106. package/esm/MultiRowXYPlotRenderer/MultiRowXYPlotRenderer.js +1 -1
  107. package/esm/MultiRowXYPlotRenderer/MultiRowXYPlotRenderer.js.map +1 -1
  108. package/esm/MultiWiggleAddTrackWidget/AddTrackWorkflow.d.ts +2 -1
  109. package/esm/MultiWiggleAddTrackWidget/AddTrackWorkflow.js +1 -1
  110. package/esm/MultiWiggleAddTrackWidget/AddTrackWorkflow.js.map +1 -1
  111. package/esm/MultiWiggleRendering.d.ts +2 -1
  112. package/esm/MultiXYPlotRenderer/MultiXYPlotRenderer.js +2 -1
  113. package/esm/MultiXYPlotRenderer/MultiXYPlotRenderer.js.map +1 -1
  114. package/esm/Tooltip.d.ts +1 -1
  115. package/esm/WiggleBaseRenderer.d.ts +1 -1
  116. package/esm/WiggleRendering.d.ts +2 -1
  117. package/esm/index.d.ts +222 -198
  118. package/esm/shared/SetMinMaxDialog.d.ts +2 -1
  119. package/esm/shared/YScaleBar.d.ts +4 -2
  120. package/esm/shared/YScaleBar.js +1 -1
  121. package/esm/shared/YScaleBar.js.map +1 -1
  122. package/esm/shared/configShared.d.ts +85 -0
  123. package/esm/shared/configShared.js +81 -0
  124. package/esm/shared/configShared.js.map +1 -0
  125. package/esm/shared/modelShared.d.ts +576 -0
  126. package/esm/shared/modelShared.js +454 -0
  127. package/esm/shared/modelShared.js.map +1 -0
  128. package/esm/util.d.ts +0 -3
  129. package/esm/util.js +0 -9
  130. package/esm/util.js.map +1 -1
  131. package/package.json +3 -3
  132. package/src/BigWigAdapter/BigWigAdapter.ts +2 -4
  133. package/src/LinearWiggleDisplay/index.ts +2 -2
  134. package/src/LinearWiggleDisplay/models/configSchema.ts +4 -73
  135. package/src/LinearWiggleDisplay/models/model.tsx +22 -503
  136. package/src/LinearWiggleDisplay/models/renderSvg.tsx +29 -0
  137. package/src/MultiDensityRenderer/MultiDensityRenderer.ts +1 -2
  138. package/src/MultiLineRenderer/MultiLineRenderer.ts +1 -2
  139. package/src/MultiLinearWiggleDisplay/components/SetColorDialog.tsx +1 -1
  140. package/src/MultiLinearWiggleDisplay/index.ts +2 -2
  141. package/src/MultiLinearWiggleDisplay/models/configSchema.ts +4 -72
  142. package/src/MultiLinearWiggleDisplay/models/model.tsx +132 -371
  143. package/src/MultiLinearWiggleDisplay/models/renderSvg.tsx +26 -0
  144. package/src/MultiRowLineRenderer/MultiRowLineRenderer.ts +1 -2
  145. package/src/MultiRowXYPlotRenderer/MultiRowXYPlotRenderer.ts +1 -2
  146. package/src/MultiWiggleAddTrackWidget/AddTrackWorkflow.tsx +1 -1
  147. package/src/MultiXYPlotRenderer/MultiXYPlotRenderer.ts +2 -2
  148. package/src/shared/YScaleBar.tsx +4 -2
  149. package/src/shared/configShared.ts +90 -0
  150. package/src/shared/modelShared.ts +510 -0
  151. package/src/util.ts +1 -10
@@ -3,17 +3,26 @@ import { Instance } from 'mobx-state-tree';
3
3
  import { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
4
4
  import { Feature } from '@jbrowse/core/util';
5
5
  import PluginManager from '@jbrowse/core/PluginManager';
6
+ import { ExportSvgDisplayOptions } from '@jbrowse/plugin-linear-genome-view';
6
7
  interface Source {
7
8
  name: string;
8
9
  color?: string;
9
10
  group?: string;
10
11
  }
11
- declare const stateModelFactory: (pluginManager: PluginManager, configSchema: AnyConfigurationSchemaType) => import("mobx-state-tree").IModelType<{
12
+ /**
13
+ * #stateModel MultiLinearWiggleDisplay
14
+ * extends `SharedWiggleMixin`
15
+ */
16
+ export declare function stateModelFactory(pluginManager: PluginManager, configSchema: AnyConfigurationSchemaType): import("mobx-state-tree").IModelType<{
12
17
  id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
13
18
  type: import("mobx-state-tree").ISimpleType<string>;
14
19
  rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
15
20
  } & {
16
21
  heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
22
+ } & {
23
+ userBpPerPxLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
24
+ userByteSizeLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
25
+ } & {
17
26
  blockState: import("mobx-state-tree").IMapType<import("mobx-state-tree").IModelType<{
18
27
  key: import("mobx-state-tree").ISimpleType<string>;
19
28
  region: import("mobx-state-tree").IModelType<{
@@ -51,6 +60,9 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
51
60
  setMessage(messageText: string): void;
52
61
  setRendered(props: {
53
62
  reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>>;
63
+ /**
64
+ * #getter
65
+ */
54
66
  features: Map<string, Feature>;
55
67
  layout: any;
56
68
  maxHeightReached: boolean;
@@ -60,8 +72,6 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
60
72
  reload(): void;
61
73
  beforeDestroy(): void;
62
74
  }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
63
- userBpPerPxLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
64
- userByteSizeLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
65
75
  configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
66
76
  maxFeatureScreenDensity: {
67
77
  type: string;
@@ -86,8 +96,6 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
86
96
  };
87
97
  }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
88
98
  } & {
89
- type: import("mobx-state-tree").ISimpleType<"MultiLinearWiggleDisplay">;
90
- configuration: AnyConfigurationSchemaType;
91
99
  selectedRendering: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
92
100
  resolution: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
93
101
  fill: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
@@ -98,16 +106,30 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
98
106
  summaryScoreMode: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
99
107
  rendererTypeNameState: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
100
108
  scale: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
101
- autoscale: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
102
- displayCrossHatches: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
103
- layout: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IType<Source[], Source[], Source[]>, [undefined]>;
109
+ autoscale: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>; /**
110
+ * #property
111
+ */
112
+ displayCrossHatches: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>; /**
113
+ * #property
114
+ */
104
115
  constraints: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IModelType<{
105
116
  max: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
106
117
  min: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
107
118
  }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>, [undefined]>;
119
+ configuration: AnyConfigurationSchemaType;
120
+ } & {
121
+ /**
122
+ * #property
123
+ */
124
+ type: import("mobx-state-tree").ISimpleType<"MultiLinearWiggleDisplay">;
125
+ /**
126
+ * #property
127
+ */
128
+ layout: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IType<Source[], Source[], Source[]>, [undefined]>;
108
129
  }, {
109
130
  rendererTypeName: string;
110
131
  error: unknown;
132
+ message: string | undefined;
111
133
  } & {
112
134
  readonly RenderingComponent: React.FC<{
113
135
  model: {
@@ -117,6 +139,7 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
117
139
  } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
118
140
  rendererTypeName: string;
119
141
  error: unknown;
142
+ message: string | undefined;
120
143
  } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
121
144
  id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
122
145
  type: import("mobx-state-tree").ISimpleType<string>;
@@ -124,8 +147,11 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
124
147
  }, {
125
148
  rendererTypeName: string;
126
149
  error: unknown;
150
+ message: string | undefined;
127
151
  }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
128
- onHorizontalScroll?: Function | undefined;
152
+ onHorizontalScroll?: Function | undefined; /**
153
+ * #property
154
+ */
129
155
  blockState?: Record<string, any> | undefined;
130
156
  }>;
131
157
  readonly DisplayBlurb: React.FC<{
@@ -136,6 +162,7 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
136
162
  } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
137
163
  rendererTypeName: string;
138
164
  error: unknown;
165
+ message: string | undefined;
139
166
  } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
140
167
  id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
141
168
  type: import("mobx-state-tree").ISimpleType<string>;
@@ -143,6 +170,7 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
143
170
  }, {
144
171
  rendererTypeName: string;
145
172
  error: unknown;
173
+ message: string | undefined;
146
174
  }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
147
175
  }> | null;
148
176
  readonly adapterConfig: any;
@@ -152,21 +180,49 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
152
180
  readonly DisplayMessageComponent: React.FC<any> | undefined;
153
181
  trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
154
182
  readonly viewMenuActions: import("@jbrowse/core/ui").MenuItem[];
155
- regionCannotBeRendered(): undefined;
183
+ regionCannotBeRendered(): null;
156
184
  } & {
185
+ setMessage(arg?: string | undefined): void;
157
186
  setError(error?: unknown): void;
158
187
  setRpcDriverName(rpcDriverName: string): void;
159
188
  reload(): void;
160
189
  } & {
161
- currBpPerPx: number;
162
190
  scrollTop: number;
163
- message: string;
164
- featureIdUnderMouse: string | undefined;
165
- contextMenuFeature: Feature | undefined;
191
+ } & {
192
+ readonly height: number;
193
+ } & {
194
+ setScrollTop(scrollTop: number): void;
195
+ setHeight(displayHeight: number): number;
196
+ resizeHeight(distance: number): number;
197
+ } & {
166
198
  featureDensityStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats> | undefined;
167
199
  featureDensityStats: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined;
200
+ currStatsBpPerPx: number;
201
+ } & {
202
+ readonly currentBytesRequested: number;
203
+ readonly currentFeatureScreenDensity: number;
204
+ readonly maxFeatureScreenDensity: any;
205
+ readonly featureDensityStatsReady: boolean;
206
+ readonly maxAllowableBytes: number;
207
+ } & {
208
+ afterAttach(): void;
209
+ } & {
210
+ setCurrStatsBpPerPx(n: number): void;
211
+ setFeatureDensityStatsLimit(stats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined): void;
212
+ getFeatureDensityStats(): Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats>;
213
+ setFeatureDensityStatsP(arg: any): void;
214
+ setFeatureDensityStats(featureDensityStats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined): void;
215
+ clearFeatureDensityStats(): void;
216
+ } & {
217
+ readonly regionTooLarge: boolean;
218
+ readonly regionTooLargeReason: string;
219
+ } & {
220
+ regionCannotBeRenderedText(_region: import("@jbrowse/core/util").Region): "" | "Force load to see features";
221
+ regionCannotBeRendered(_region: import("@jbrowse/core/util").Region): React.JSX.Element | null;
222
+ } & {
223
+ featureIdUnderMouse: string | undefined;
224
+ contextMenuFeature: Feature | undefined;
168
225
  } & {
169
- readonly height: number;
170
226
  readonly blockType: "dynamicBlocks" | "staticBlocks";
171
227
  readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
172
228
  } & {
@@ -175,153 +231,273 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
175
231
  readonly selectedFeatureId: string | undefined;
176
232
  readonly DisplayMessageComponent: React.FC<any> | undefined;
177
233
  } & {
178
- readonly features: import("@jbrowse/core/util/compositeMap").default<string, Feature>;
234
+ readonly features: import("@jbrowse/core/util/compositeMap").default<string, Feature>; /**
235
+ * #getter
236
+ * can be used to give it a "color scale" like a R heatmap, not
237
+ * implemented like this yet but flag can be used for this
238
+ */
179
239
  readonly featureUnderMouse: Feature | undefined;
180
240
  getFeatureOverlapping(blockKey: string, x: number, y: number): string | undefined;
181
241
  getFeatureByID(blockKey: string, id: string): [number, number, number, number] | undefined;
182
242
  searchFeatureByID(id: string): [number, number, number, number] | undefined;
183
- readonly currentBytesRequested: number;
184
- readonly currentFeatureScreenDensity: number;
185
- readonly maxFeatureScreenDensity: any;
186
- readonly featureDensityStatsReady: boolean;
187
- readonly maxAllowableBytes: number;
188
- } & {
189
- setMessage(message: string): void;
190
243
  } & {
191
- afterAttach(): void;
192
- getFeatureDensityStats(): Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats>;
193
- setFeatureDensityStatsP(arg: any): void;
194
- setFeatureDensityStats(featureDensityStats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined): void;
195
- clearFeatureDensityStats(): void;
196
- setHeight(displayHeight: number): number;
197
- resizeHeight(distance: number): number;
198
- setScrollTop(scrollTop: number): void;
199
- setFeatureDensityStatsLimit(stats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined): void;
200
244
  addBlock(key: string, block: import("@jbrowse/core/util/blockTypes").BaseBlock): void;
201
- setCurrBpPerPx(n: number): void;
202
245
  deleteBlock(key: string): void;
203
246
  selectFeature(feature: Feature): void;
204
247
  clearFeatureSelection(): void;
205
248
  setFeatureIdUnderMouse(feature?: string | undefined): void;
206
- reload(): void;
207
249
  setContextMenuFeature(feature?: Feature | undefined): void;
208
- } & {
209
- readonly regionTooLarge: boolean;
210
- readonly regionTooLargeReason: string;
211
250
  } & {
212
251
  reload(): Promise<void>;
213
252
  } & {
214
- afterAttach(): void;
215
- } & {
216
- regionCannotBeRenderedText(_region: import("@jbrowse/core/util").Region): "" | "Force load to see features";
217
- regionCannotBeRendered(_region: import("@jbrowse/core/util").Region): JSX.Element | null;
218
253
  trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
219
254
  contextMenuItems(): import("@jbrowse/core/ui").MenuItem[];
220
- renderProps(): any;
255
+ renderProps(): any; /**
256
+ * #method
257
+ */
221
258
  } & {
222
- renderSvg(opts: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").ExportSvgOptions & {
223
- overrideHeight: number;
224
- theme: import("@mui/material").ThemeOptions;
225
- }): Promise<JSX.Element>;
259
+ renderSvg(opts: ExportSvgDisplayOptions): Promise<React.JSX.Element>;
260
+ afterAttach(): void;
226
261
  } & {
227
262
  message: string | undefined;
228
263
  stats: {
229
264
  scoreMin: number;
230
265
  scoreMax: number;
231
266
  } | undefined;
232
- statsRegion: string | undefined;
267
+ /**
268
+ * #action
269
+ */
233
270
  statsFetchInProgress: AbortController | undefined;
234
- featureUnderMouseVolatile: Feature | undefined;
235
- sourcesVolatile: Source[] | undefined;
236
271
  } & {
237
- setLayout(layout: Source[]): void;
238
- clearLayout(): void;
239
272
  updateQuantitativeStats(stats: {
240
- scoreMin: number;
273
+ scoreMin: number; /**
274
+ * #action
275
+ */
241
276
  scoreMax: number;
242
277
  }): void;
243
- setSources(sources: Source[]): void;
244
- setColor(color: string): void;
245
- setPosColor(color: string): void;
246
- setNegColor(color: string): void;
278
+ setColor(color?: string | undefined): void;
279
+ setPosColor(color?: string | undefined): void;
280
+ setNegColor(color?: string | undefined): void;
247
281
  setLoading(aborter: AbortController): void;
248
282
  selectFeature(feature: Feature): void;
249
- setFeatureUnderMouse(f?: Feature): void;
250
283
  setResolution(res: number): void;
251
284
  setFill(fill: number): void;
252
285
  toggleLogScale(): void;
253
- setScaleType(scale?: string): void;
286
+ setScaleType(scale?: string | undefined): void;
254
287
  setSummaryScoreMode(val: string): void;
255
288
  setAutoscale(val: string): void;
256
- setMaxScore(val?: number): void;
289
+ setMaxScore(val?: number | undefined): void;
257
290
  setRendererType(val: string): void;
258
- setMinScore(val?: number): void;
291
+ setMinScore(val?: number | undefined): void;
259
292
  toggleCrossHatches(): void;
260
293
  setCrossHatches(cross: boolean): void;
261
294
  } & {
262
- readonly featureUnderMouse: Feature | undefined;
263
- readonly TooltipComponent: React.FC<{}>;
264
295
  readonly adapterTypeName: any;
265
296
  readonly rendererTypeNameSimple: any;
266
- readonly rendererTypeName: string;
267
297
  readonly filters: undefined;
268
- readonly scaleType: string;
269
- readonly maxScore: number;
270
- readonly minScore: number;
298
+ readonly scaleType: any;
299
+ readonly maxScore: any;
300
+ readonly minScore: any;
271
301
  } & {
302
+ readonly adapterCapabilities: string[];
272
303
  readonly rendererConfig: {
273
304
  [x: string]: any;
274
305
  } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
275
306
  setSubschema(slotName: string, data: unknown): any;
276
307
  } & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>;
308
+ readonly autoscaleType: any;
309
+ } & {
310
+ readonly domain: number[] | undefined;
311
+ } & {
312
+ readonly filled: boolean;
313
+ readonly summaryScoreModeSetting: string;
314
+ readonly scaleOpts: {
315
+ domain: number[] | undefined;
316
+ stats: {
317
+ scoreMin: number;
318
+ scoreMax: number;
319
+ } | undefined;
320
+ autoscaleType: any;
321
+ scaleType: any;
322
+ inverted: any;
323
+ };
324
+ readonly canHaveFill: boolean;
325
+ readonly displayCrossHatchesSetting: boolean;
326
+ readonly hasResolution: boolean;
327
+ readonly hasGlobalStats: boolean;
277
328
  } & {
329
+ scoreTrackMenuItems(): ({
330
+ label: string;
331
+ subMenu: {
332
+ label: string;
333
+ onClick: () => void;
334
+ }[];
335
+ onClick?: undefined;
336
+ } | {
337
+ label: string;
338
+ subMenu: {
339
+ label: string;
340
+ type: string;
341
+ checked: boolean;
342
+ onClick: () => void;
343
+ }[];
344
+ onClick?: undefined;
345
+ } | {
346
+ label: string;
347
+ onClick: () => void;
348
+ subMenu?: undefined;
349
+ })[];
350
+ } & {
351
+ reload(): Promise<void>;
352
+ } & {
353
+ featureUnderMouseVolatile: Feature | undefined;
354
+ sourcesVolatile: Source[] | undefined;
355
+ } & {
356
+ /**
357
+ * #action
358
+ */
359
+ setLayout(layout: Source[]): void;
360
+ /**
361
+ * #action
362
+ */
363
+ clearLayout(): void;
364
+ /**
365
+ * #action
366
+ */
367
+ setSources(sources: Source[]): void;
368
+ /**
369
+ * #action
370
+ */
371
+ setFeatureUnderMouse(f?: Feature): void;
372
+ } & {
373
+ /**
374
+ * #getter
375
+ */
376
+ readonly featureUnderMouse: Feature | undefined;
377
+ /**
378
+ * #getter
379
+ */
380
+ readonly TooltipComponent: React.FC<{}>;
381
+ /**
382
+ * #getter
383
+ */
384
+ readonly rendererTypeName: string;
385
+ } & {
386
+ /**
387
+ * #getter
388
+ */
278
389
  readonly needsScalebar: boolean;
390
+ /**
391
+ * #getter
392
+ */
279
393
  readonly needsFullHeightScalebar: boolean;
394
+ /**
395
+ * #getter
396
+ */
280
397
  readonly isMultiRow: boolean;
398
+ /**
399
+ * #getter
400
+ * can be used to give it a "color scale" like a R heatmap, not
401
+ * implemented like this yet but flag can be used for this
402
+ */
281
403
  readonly needsCustomLegend: boolean;
282
404
  readonly canHaveFill: boolean;
405
+ /**
406
+ * #getter
407
+ * the multirowxy and multiline don't need to use colors on the legend
408
+ * boxes since their track is drawn with the color. sort of a stylistic
409
+ * choice
410
+ */
283
411
  readonly renderColorBoxes: boolean;
412
+ /**
413
+ * #getter
414
+ * positions multi-row below the tracklabel even if using overlap
415
+ * tracklabels for everything else
416
+ */
284
417
  readonly prefersOffset: boolean;
418
+ /**
419
+ * #getter
420
+ */
285
421
  readonly sources: {
286
422
  color: string;
287
423
  name: string;
288
424
  group?: string | undefined;
289
425
  }[] | undefined;
290
426
  } & {
291
- readonly filled: boolean;
292
- readonly summaryScoreModeSetting: string;
293
- readonly domain: number[] | undefined;
294
- readonly scaleOpts: {
295
- autoscaleType: string;
296
- domain: number[] | undefined;
297
- stats: {
298
- scoreMin: number;
299
- scoreMax: number;
300
- } | undefined;
301
- scaleType: string;
302
- inverted: any;
303
- };
304
- readonly autoscaleType: string;
305
- readonly displayCrossHatchesSetting: boolean;
427
+ /**
428
+ * #getter
429
+ */
306
430
  readonly rowHeight: number;
431
+ /**
432
+ * #getter
433
+ */
307
434
  readonly rowHeightTooSmallForScalebar: boolean;
435
+ /**
436
+ * #getter
437
+ */
308
438
  readonly useMinimalTicks: any;
309
439
  } & {
440
+ /**
441
+ * #getter
442
+ */
310
443
  readonly ticks: {
311
444
  range: number[];
312
445
  values: number[];
313
446
  format: (d: import("d3-scale").NumberValue) => string;
314
447
  position: import("d3-scale").ScaleLinear<number, number, never> | import("d3-scale").ScaleQuantize<number, never>;
315
448
  } | undefined;
449
+ /**
450
+ * #getter
451
+ */
316
452
  readonly colors: string[];
317
- readonly adapterCapabilities: string[];
318
453
  } & {
454
+ /**
455
+ * #method
456
+ */
319
457
  renderProps(): any;
458
+ /**
459
+ * #getter
460
+ */
320
461
  readonly hasResolution: boolean;
462
+ /**
463
+ * #getter
464
+ */
321
465
  readonly hasGlobalStats: boolean;
466
+ /**
467
+ * #getter
468
+ */
322
469
  readonly fillSetting: 2 | 0 | 1;
323
470
  } & {
471
+ /**
472
+ * #method
473
+ */
324
474
  trackMenuItems(): (import("@jbrowse/core/ui").MenuDivider | import("@jbrowse/core/ui").MenuSubHeader | import("@jbrowse/core/ui").NormalMenuItem | import("@jbrowse/core/ui").CheckboxMenuItem | import("@jbrowse/core/ui").RadioMenuItem | import("@jbrowse/core/ui").SubMenuItem | {
475
+ label: string;
476
+ subMenu: ({
477
+ label: string;
478
+ subMenu: {
479
+ label: string;
480
+ onClick: () => void;
481
+ }[];
482
+ onClick?: undefined;
483
+ } | {
484
+ label: string;
485
+ subMenu: {
486
+ label: string;
487
+ type: string;
488
+ checked: boolean;
489
+ onClick: () => void;
490
+ }[];
491
+ onClick?: undefined;
492
+ } | {
493
+ label: string;
494
+ onClick: () => void;
495
+ subMenu?: undefined;
496
+ })[];
497
+ type?: undefined;
498
+ checked?: undefined;
499
+ onClick?: undefined;
500
+ } | {
325
501
  label: string;
326
502
  subMenu: {
327
503
  label: string;
@@ -340,100 +516,12 @@ declare const stateModelFactory: (pluginManager: PluginManager, configSchema: An
340
516
  subMenu?: undefined;
341
517
  })[];
342
518
  } & {
343
- reload(): Promise<void>;
344
519
  afterAttach(): void;
345
- renderSvg(opts: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").ExportSvgOptions & {
346
- overrideHeight: number;
347
- theme: import("@mui/material").ThemeOptions;
348
- }): Promise<JSX.Element>;
349
- }, {
350
- type: string;
351
- } & Partial<import("mobx-state-tree/dist/internal").ExtractCFromProps<{
352
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
353
- type: import("mobx-state-tree").ISimpleType<string>;
354
- rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
355
- } & {
356
- heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
357
- blockState: import("mobx-state-tree").IMapType<import("mobx-state-tree").IModelType<{
358
- key: import("mobx-state-tree").ISimpleType<string>;
359
- region: import("mobx-state-tree").IModelType<{
360
- refName: import("mobx-state-tree").ISimpleType<string>;
361
- start: import("mobx-state-tree").ISimpleType<number>;
362
- end: import("mobx-state-tree").ISimpleType<number>;
363
- reversed: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
364
- } & {
365
- assemblyName: import("mobx-state-tree").ISimpleType<string>;
366
- }, {
367
- setRefName(newRefName: string): void;
368
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
369
- reloadFlag: import("mobx-state-tree").IType<number | undefined, number, number>;
370
- isLeftEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
371
- isRightEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
372
- }, {
373
- renderInProgress: AbortController | undefined;
374
- filled: boolean;
375
- reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>> | undefined;
376
- features: Map<string, Feature> | undefined;
377
- layout: any;
378
- status: string;
379
- error: unknown;
380
- message: string | undefined;
381
- maxHeightReached: boolean;
382
- ReactComponent: ({ model, }: {
383
- model: any;
384
- }) => any;
385
- renderProps: any;
386
- } & {
387
- doReload(): void;
388
- afterAttach(): void;
389
- setStatus(message: string): void;
390
- setLoading(abortController: AbortController): void;
391
- setMessage(messageText: string): void;
392
- setRendered(props: {
393
- reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>>;
394
- features: Map<string, Feature>;
395
- layout: any;
396
- maxHeightReached: boolean;
397
- renderProps: any;
398
- } | undefined): void;
399
- setError(error: unknown): void;
400
- reload(): void;
401
- beforeDestroy(): void;
402
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
403
- userBpPerPxLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
404
- userByteSizeLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
405
- configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
406
- maxFeatureScreenDensity: {
407
- type: string;
408
- description: string;
409
- defaultValue: number;
410
- };
411
- fetchSizeLimit: {
412
- type: string;
413
- defaultValue: number;
414
- description: string;
415
- };
416
- height: {
417
- type: string;
418
- defaultValue: number;
419
- description: string;
420
- };
421
- mouseover: {
422
- type: string;
423
- description: string;
424
- defaultValue: string;
425
- contextVariable: string[];
426
- };
427
- }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
428
- }>> & import("mobx-state-tree/dist/internal").NonEmptyObject & import("mobx-state-tree")._NotCustomized, {
429
- type: string;
430
- id: string;
431
- configuration: import("mobx-state-tree").ModelSnapshotType<Record<string, any>>;
432
- rpcDriverName: string | undefined;
433
- heightPreConfig: number | undefined;
434
- userBpPerPxLimit: number | undefined;
435
- userByteSizeLimit: number | undefined;
436
- } & import("mobx-state-tree")._NotCustomized>;
520
+ /**
521
+ * #action
522
+ */
523
+ renderSvg(opts: ExportSvgDisplayOptions): Promise<React.JSX.Element>;
524
+ }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
437
525
  export type WiggleDisplayStateModel = ReturnType<typeof stateModelFactory>;
438
526
  export type WiggleDisplayModel = Instance<WiggleDisplayStateModel>;
439
527
  export default stateModelFactory;