@jbrowse/react-linear-genome-view2 3.6.5 → 4.0.0

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.
Files changed (66) hide show
  1. package/esm/JBrowseLinearGenomeView/JBrowseLinearGenomeView.d.ts +1 -1
  2. package/esm/JBrowseLinearGenomeView/JBrowseLinearGenomeView.js +2 -2
  3. package/esm/JBrowseLinearGenomeView/index.d.ts +1 -1
  4. package/esm/JBrowseLinearGenomeView/index.js +1 -1
  5. package/esm/corePlugins.d.ts +2 -2
  6. package/esm/corePlugins.js +2 -2
  7. package/esm/createModel/createConfigModel.d.ts +23 -23
  8. package/esm/createModel/createConfigModel.js +1 -1
  9. package/esm/createModel/createModel.d.ts +1067 -1134
  10. package/esm/createModel/createModel.js +5 -5
  11. package/esm/createModel/createSessionModel.d.ts +550 -594
  12. package/esm/createModel/createSessionModel.js +5 -4
  13. package/esm/createModel/index.d.ts +3 -3
  14. package/esm/createModel/index.js +3 -3
  15. package/esm/createViewState.d.ts +2798 -3007
  16. package/esm/createViewState.js +3 -3
  17. package/esm/index.d.ts +5 -5
  18. package/esm/index.js +4 -4
  19. package/esm/loadPlugins.js +1 -1
  20. package/esm/rpcWorker.d.ts +1 -1
  21. package/esm/rpcWorker.js +11 -3
  22. package/esm/types.d.ts +1 -1
  23. package/esm/version.d.ts +1 -1
  24. package/esm/version.js +1 -1
  25. package/esm/webpack.d.ts +5 -5
  26. package/esm/webpack.js +4 -4
  27. package/package.json +48 -56
  28. package/dist/JBrowseLinearGenomeView/JBrowseLinearGenomeView.d.ts +0 -5
  29. package/dist/JBrowseLinearGenomeView/JBrowseLinearGenomeView.js +0 -19
  30. package/dist/JBrowseLinearGenomeView/JBrowseLinearGenomeView.test.d.ts +0 -1
  31. package/dist/JBrowseLinearGenomeView/JBrowseLinearGenomeView.test.js +0 -77
  32. package/dist/JBrowseLinearGenomeView/index.d.ts +0 -1
  33. package/dist/JBrowseLinearGenomeView/index.js +0 -8
  34. package/dist/corePlugins.d.ts +0 -3
  35. package/dist/corePlugins.js +0 -38
  36. package/dist/createModel/AboutDialog.d.ts +0 -1
  37. package/dist/createModel/AboutDialog.js +0 -5
  38. package/dist/createModel/createConfigModel.d.ts +0 -94
  39. package/dist/createModel/createConfigModel.js +0 -43
  40. package/dist/createModel/createModel.d.ts +0 -6332
  41. package/dist/createModel/createModel.js +0 -118
  42. package/dist/createModel/createSessionModel.d.ts +0 -2767
  43. package/dist/createModel/createSessionModel.js +0 -118
  44. package/dist/createModel/index.d.ts +0 -3
  45. package/dist/createModel/index.js +0 -12
  46. package/dist/createViewState.d.ts +0 -16589
  47. package/dist/createViewState.js +0 -75
  48. package/dist/index.d.ts +0 -5
  49. package/dist/index.js +0 -14
  50. package/dist/loadPlugins.d.ts +0 -13
  51. package/dist/loadPlugins.js +0 -12
  52. package/dist/react-linear-genome-view.umd.production.min.js +0 -229
  53. package/dist/react-linear-genome-view.umd.production.min.js.LICENSE.txt +0 -192
  54. package/dist/react-linear-genome-view.umd.production.min.js.map +0 -1
  55. package/dist/rpcWorker.d.ts +0 -2
  56. package/dist/rpcWorker.js +0 -49
  57. package/dist/types.d.ts +0 -5
  58. package/dist/types.js +0 -2
  59. package/dist/version.d.ts +0 -1
  60. package/dist/version.js +0 -4
  61. package/dist/webpack.d.ts +0 -8
  62. package/dist/webpack.js +0 -53
  63. package/dist/workerPolyfill.d.ts +0 -0
  64. package/dist/workerPolyfill.js +0 -34
  65. package/esm/workerPolyfill.d.ts +0 -0
  66. package/esm/workerPolyfill.js +0 -34
package/esm/createModel/createSessionModel.d.ts CHANGED
@@ -1,66 +1,24 @@
1
1
  import type PluginManager from '@jbrowse/core/PluginManager';
2
+ import type { MenuItem } from '@jbrowse/core/ui';
3
+ import type { Instance } from '@jbrowse/mobx-state-tree';
2
4
  import type { LinearGenomeViewStateModel } from '@jbrowse/plugin-linear-genome-view';
3
- import type { Instance } from 'mobx-state-tree';
4
- export default function sessionModelFactory(pluginManager: PluginManager): import("mobx-state-tree").IModelType<{
5
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
6
- name: import("mobx-state-tree").ISimpleType<string>;
7
- margin: import("mobx-state-tree").IType<number | undefined, number, number>;
5
+ export default function sessionModelFactory(pluginManager: PluginManager): import("@jbrowse/mobx-state-tree").IModelType<{
6
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
7
+ name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
8
+ margin: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
8
9
  } & {
9
- drawerPosition: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
10
- drawerWidth: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
11
- widgets: import("mobx-state-tree").IMapType<import("mobx-state-tree").IAnyType>;
12
- activeWidgets: import("mobx-state-tree").IMapType<import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>>;
13
- minimized: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
10
+ drawerPosition: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
11
+ drawerWidth: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<number>, [undefined]>;
12
+ widgets: import("@jbrowse/mobx-state-tree").IMapType<import("@jbrowse/mobx-state-tree").IAnyType>;
13
+ activeWidgets: import("@jbrowse/mobx-state-tree").IMapType<import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>>;
14
+ minimized: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
14
15
  } & {
15
- connectionInstances: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IModelType<{
16
- name: import("mobx-state-tree").ISimpleType<string>;
17
- tracks: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>;
18
- configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
19
- name: {
20
- type: string;
21
- defaultValue: string;
22
- description: string;
23
- };
24
- assemblyNames: {
25
- type: string;
26
- defaultValue: never[];
27
- description: string;
28
- };
29
- }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "connectionId">>;
30
- }, {
31
- connect(_arg: import("@jbrowse/core/configuration").AnyConfigurationModel): void;
32
- } & {
33
- afterAttach(): void;
34
- addTrackConf(trackConf: ({
35
- [x: string]: any;
36
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
37
- setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
38
- [x: string]: any;
39
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
40
- setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
41
- [x: string]: any;
42
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & any & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
43
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
44
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>) | Record<string, unknown>): any;
45
- addTrackConfs(trackConfs: (({
46
- [x: string]: any;
47
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
48
- setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
49
- [x: string]: any;
50
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
51
- setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
52
- [x: string]: any;
53
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & any & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
54
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
55
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>) | Record<string, unknown>)[]): void;
56
- setTrackConfs(trackConfs: import("@jbrowse/core/configuration").AnyConfigurationModel[]): void;
57
- clear(): void;
58
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
16
+ connectionInstances: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
59
17
  } & {
60
- sessionTracks: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>;
18
+ sessionTracks: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyModelType>;
61
19
  } & {
62
20
  view: LinearGenomeViewStateModel;
63
- sessionTracks: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>;
21
+ sessionTracks: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyModelType>;
64
22
  }, {
65
23
  selection: unknown;
66
24
  hovered: unknown;
@@ -70,8 +28,8 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
70
28
  session: any;
71
29
  sessionPath: string;
72
30
  assemblyManager: {
73
- assemblies: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IModelType<{
74
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
31
+ assemblies: import("@jbrowse/mobx-state-tree").IMSTArray<import("@jbrowse/mobx-state-tree").IModelType<{
32
+ configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
75
33
  }, {
76
34
  error: unknown;
77
35
  loadingP: Promise<void> | undefined;
@@ -79,6 +37,7 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
79
37
  refNameAliases: {
80
38
  [x: string]: string;
81
39
  } | undefined;
40
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
82
41
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
83
42
  } & {
84
43
  getConf(arg: string): any;
@@ -102,22 +61,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
102
61
  readonly refNames: string[] | undefined;
103
62
  } & {
104
63
  getCanonicalRefName(refName: string): string | undefined;
64
+ getCanonicalRefName2(refName: string): string;
105
65
  getRefNameColor(refName: string): string | undefined;
106
66
  isValidRefName(refName: string): boolean;
67
+ getSeqAdapterRefName(canonicalRefName: string): string;
107
68
  } & {
108
69
  setLoaded({ regions, refNameAliases, cytobands, }: {
109
- regions: import("@jbrowse/core/util/types").Region[];
70
+ regions: import("@jbrowse/core/util").Region[];
110
71
  refNameAliases: {
111
72
  [x: string]: string;
112
73
  };
113
74
  cytobands: import("@jbrowse/core/util").Feature[];
114
75
  }): void;
115
76
  setError(e: unknown): void;
116
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
77
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
117
78
  setRefNameAliases(aliases: {
118
79
  [x: string]: string;
119
80
  }): void;
120
81
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
82
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
121
83
  setLoadingP(p?: Promise<void>): void;
122
84
  load(): Promise<void>;
123
85
  loadPre(): Promise<void>;
@@ -136,8 +98,8 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
136
98
  [x: string]: string;
137
99
  }>;
138
100
  afterCreate(): void;
139
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IModelType<{
140
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
101
+ }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>> & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IModelType<{
102
+ configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
141
103
  }, {
142
104
  error: unknown;
143
105
  loadingP: Promise<void> | undefined;
@@ -145,6 +107,7 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
145
107
  refNameAliases: {
146
108
  [x: string]: string;
147
109
  } | undefined;
110
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
148
111
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
149
112
  } & {
150
113
  getConf(arg: string): any;
@@ -168,22 +131,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
168
131
  readonly refNames: string[] | undefined;
169
132
  } & {
170
133
  getCanonicalRefName(refName: string): string | undefined;
134
+ getCanonicalRefName2(refName: string): string;
171
135
  getRefNameColor(refName: string): string | undefined;
172
136
  isValidRefName(refName: string): boolean;
137
+ getSeqAdapterRefName(canonicalRefName: string): string;
173
138
  } & {
174
139
  setLoaded({ regions, refNameAliases, cytobands, }: {
175
- regions: import("@jbrowse/core/util/types").Region[];
140
+ regions: import("@jbrowse/core/util").Region[];
176
141
  refNameAliases: {
177
142
  [x: string]: string;
178
143
  };
179
144
  cytobands: import("@jbrowse/core/util").Feature[];
180
145
  }): void;
181
146
  setError(e: unknown): void;
182
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
147
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
183
148
  setRefNameAliases(aliases: {
184
149
  [x: string]: string;
185
150
  }): void;
186
151
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
152
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
187
153
  setLoadingP(p?: Promise<void>): void;
188
154
  load(): Promise<void>;
189
155
  loadPre(): Promise<void>;
@@ -202,17 +168,18 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
202
168
  [x: string]: string;
203
169
  }>;
204
170
  afterCreate(): void;
205
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>>;
206
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
171
+ }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>>;
172
+ } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & {
207
173
  readonly assemblyNameMap: Record<string, {
208
174
  configuration: any;
209
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
175
+ } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & {
210
176
  error: unknown;
211
177
  loadingP: Promise<void> | undefined;
212
178
  volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
213
179
  refNameAliases: {
214
180
  [x: string]: string;
215
181
  } | undefined;
182
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
216
183
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
217
184
  } & {
218
185
  getConf(arg: string): any;
@@ -236,22 +203,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
236
203
  readonly refNames: string[] | undefined;
237
204
  } & {
238
205
  getCanonicalRefName(refName: string): string | undefined;
206
+ getCanonicalRefName2(refName: string): string;
239
207
  getRefNameColor(refName: string): string | undefined;
240
208
  isValidRefName(refName: string): boolean;
209
+ getSeqAdapterRefName(canonicalRefName: string): string;
241
210
  } & {
242
211
  setLoaded({ regions, refNameAliases, cytobands, }: {
243
- regions: import("@jbrowse/core/util/types").Region[];
212
+ regions: import("@jbrowse/core/util").Region[];
244
213
  refNameAliases: {
245
214
  [x: string]: string;
246
215
  };
247
216
  cytobands: import("@jbrowse/core/util").Feature[];
248
217
  }): void;
249
218
  setError(e: unknown): void;
250
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
219
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
251
220
  setRefNameAliases(aliases: {
252
221
  [x: string]: string;
253
222
  }): void;
254
223
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
224
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
255
225
  setLoadingP(p?: Promise<void>): void;
256
226
  load(): Promise<void>;
257
227
  loadPre(): Promise<void>;
@@ -270,8 +240,8 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
270
240
  [x: string]: string;
271
241
  }>;
272
242
  afterCreate(): void;
273
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
274
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
243
+ } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
244
+ configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
275
245
  }, {
276
246
  error: unknown;
277
247
  loadingP: Promise<void> | undefined;
@@ -279,6 +249,7 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
279
249
  refNameAliases: {
280
250
  [x: string]: string;
281
251
  } | undefined;
252
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
282
253
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
283
254
  } & {
284
255
  getConf(arg: string): any;
@@ -302,22 +273,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
302
273
  readonly refNames: string[] | undefined;
303
274
  } & {
304
275
  getCanonicalRefName(refName: string): string | undefined;
276
+ getCanonicalRefName2(refName: string): string;
305
277
  getRefNameColor(refName: string): string | undefined;
306
278
  isValidRefName(refName: string): boolean;
279
+ getSeqAdapterRefName(canonicalRefName: string): string;
307
280
  } & {
308
281
  setLoaded({ regions, refNameAliases, cytobands, }: {
309
- regions: import("@jbrowse/core/util/types").Region[];
282
+ regions: import("@jbrowse/core/util").Region[];
310
283
  refNameAliases: {
311
284
  [x: string]: string;
312
285
  };
313
286
  cytobands: import("@jbrowse/core/util").Feature[];
314
287
  }): void;
315
288
  setError(e: unknown): void;
316
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
289
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
317
290
  setRefNameAliases(aliases: {
318
291
  [x: string]: string;
319
292
  }): void;
320
293
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
294
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
321
295
  setLoadingP(p?: Promise<void>): void;
322
296
  load(): Promise<void>;
323
297
  loadPre(): Promise<void>;
@@ -336,18 +310,20 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
336
310
  [x: string]: string;
337
311
  }>;
338
312
  afterCreate(): void;
339
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>>;
313
+ }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>>;
340
314
  } & {
341
315
  getCanonicalAssemblyName(asmName: string): string | undefined;
316
+ getCanonicalAssemblyName2(asmName: string): string;
342
317
  get(asmName: string): ({
343
318
  configuration: any;
344
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
319
+ } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & {
345
320
  error: unknown;
346
321
  loadingP: Promise<void> | undefined;
347
322
  volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
348
323
  refNameAliases: {
349
324
  [x: string]: string;
350
325
  } | undefined;
326
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
351
327
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
352
328
  } & {
353
329
  getConf(arg: string): any;
@@ -371,22 +347,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
371
347
  readonly refNames: string[] | undefined;
372
348
  } & {
373
349
  getCanonicalRefName(refName: string): string | undefined;
350
+ getCanonicalRefName2(refName: string): string;
374
351
  getRefNameColor(refName: string): string | undefined;
375
352
  isValidRefName(refName: string): boolean;
353
+ getSeqAdapterRefName(canonicalRefName: string): string;
376
354
  } & {
377
355
  setLoaded({ regions, refNameAliases, cytobands, }: {
378
- regions: import("@jbrowse/core/util/types").Region[];
356
+ regions: import("@jbrowse/core/util").Region[];
379
357
  refNameAliases: {
380
358
  [x: string]: string;
381
359
  };
382
360
  cytobands: import("@jbrowse/core/util").Feature[];
383
361
  }): void;
384
362
  setError(e: unknown): void;
385
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
363
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
386
364
  setRefNameAliases(aliases: {
387
365
  [x: string]: string;
388
366
  }): void;
389
367
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
368
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
390
369
  setLoadingP(p?: Promise<void>): void;
391
370
  load(): Promise<void>;
392
371
  loadPre(): Promise<void>;
@@ -405,8 +384,8 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
405
384
  [x: string]: string;
406
385
  }>;
407
386
  afterCreate(): void;
408
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
409
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
387
+ } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
388
+ configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
410
389
  }, {
411
390
  error: unknown;
412
391
  loadingP: Promise<void> | undefined;
@@ -414,6 +393,7 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
414
393
  refNameAliases: {
415
394
  [x: string]: string;
416
395
  } | undefined;
396
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
417
397
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
418
398
  } & {
419
399
  getConf(arg: string): any;
@@ -437,22 +417,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
437
417
  readonly refNames: string[] | undefined;
438
418
  } & {
439
419
  getCanonicalRefName(refName: string): string | undefined;
420
+ getCanonicalRefName2(refName: string): string;
440
421
  getRefNameColor(refName: string): string | undefined;
441
422
  isValidRefName(refName: string): boolean;
423
+ getSeqAdapterRefName(canonicalRefName: string): string;
442
424
  } & {
443
425
  setLoaded({ regions, refNameAliases, cytobands, }: {
444
- regions: import("@jbrowse/core/util/types").Region[];
426
+ regions: import("@jbrowse/core/util").Region[];
445
427
  refNameAliases: {
446
428
  [x: string]: string;
447
429
  };
448
430
  cytobands: import("@jbrowse/core/util").Feature[];
449
431
  }): void;
450
432
  setError(e: unknown): void;
451
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
433
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
452
434
  setRefNameAliases(aliases: {
453
435
  [x: string]: string;
454
436
  }): void;
455
437
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
438
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
456
439
  setLoadingP(p?: Promise<void>): void;
457
440
  load(): Promise<void>;
458
441
  loadPre(): Promise<void>;
@@ -471,20 +454,21 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
471
454
  [x: string]: string;
472
455
  }>;
473
456
  afterCreate(): void;
474
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined;
457
+ }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>) | undefined;
475
458
  readonly assemblyNamesList: any[];
476
459
  readonly assemblyList: import("@jbrowse/core/configuration").AnyConfigurationModel[];
477
460
  readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
478
461
  } & {
479
462
  waitForAssembly(assemblyName: string): Promise<({
480
463
  configuration: any;
481
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
464
+ } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & {
482
465
  error: unknown;
483
466
  loadingP: Promise<void> | undefined;
484
467
  volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
485
468
  refNameAliases: {
486
469
  [x: string]: string;
487
470
  } | undefined;
471
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
488
472
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
489
473
  } & {
490
474
  getConf(arg: string): any;
@@ -508,22 +492,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
508
492
  readonly refNames: string[] | undefined;
509
493
  } & {
510
494
  getCanonicalRefName(refName: string): string | undefined;
495
+ getCanonicalRefName2(refName: string): string;
511
496
  getRefNameColor(refName: string): string | undefined;
512
497
  isValidRefName(refName: string): boolean;
498
+ getSeqAdapterRefName(canonicalRefName: string): string;
513
499
  } & {
514
500
  setLoaded({ regions, refNameAliases, cytobands, }: {
515
- regions: import("@jbrowse/core/util/types").Region[];
501
+ regions: import("@jbrowse/core/util").Region[];
516
502
  refNameAliases: {
517
503
  [x: string]: string;
518
504
  };
519
505
  cytobands: import("@jbrowse/core/util").Feature[];
520
506
  }): void;
521
507
  setError(e: unknown): void;
522
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
508
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
523
509
  setRefNameAliases(aliases: {
524
510
  [x: string]: string;
525
511
  }): void;
526
512
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
513
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
527
514
  setLoadingP(p?: Promise<void>): void;
528
515
  load(): Promise<void>;
529
516
  loadPre(): Promise<void>;
@@ -542,8 +529,8 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
542
529
  [x: string]: string;
543
530
  }>;
544
531
  afterCreate(): void;
545
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
546
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
532
+ } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
533
+ configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
547
534
  }, {
548
535
  error: unknown;
549
536
  loadingP: Promise<void> | undefined;
@@ -551,6 +538,7 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
551
538
  refNameAliases: {
552
539
  [x: string]: string;
553
540
  } | undefined;
541
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
554
542
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
555
543
  } & {
556
544
  getConf(arg: string): any;
@@ -574,22 +562,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
574
562
  readonly refNames: string[] | undefined;
575
563
  } & {
576
564
  getCanonicalRefName(refName: string): string | undefined;
565
+ getCanonicalRefName2(refName: string): string;
577
566
  getRefNameColor(refName: string): string | undefined;
578
567
  isValidRefName(refName: string): boolean;
568
+ getSeqAdapterRefName(canonicalRefName: string): string;
579
569
  } & {
580
570
  setLoaded({ regions, refNameAliases, cytobands, }: {
581
- regions: import("@jbrowse/core/util/types").Region[];
571
+ regions: import("@jbrowse/core/util").Region[];
582
572
  refNameAliases: {
583
573
  [x: string]: string;
584
574
  };
585
575
  cytobands: import("@jbrowse/core/util").Feature[];
586
576
  }): void;
587
577
  setError(e: unknown): void;
588
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
578
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
589
579
  setRefNameAliases(aliases: {
590
580
  [x: string]: string;
591
581
  }): void;
592
582
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
583
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
593
584
  setLoadingP(p?: Promise<void>): void;
594
585
  load(): Promise<void>;
595
586
  loadPre(): Promise<void>;
@@ -608,21 +599,15 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
608
599
  [x: string]: string;
609
600
  }>;
610
601
  afterCreate(): void;
611
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined>;
602
+ }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>) | undefined>;
612
603
  getRefNameMapForAdapter(adapterConf: {
613
604
  [x: string]: unknown;
614
- }, assemblyName: string | undefined, opts: {
615
- stopToken?: string;
616
- sessionId: string;
617
- }): Promise<{
605
+ }, assemblyName: string | undefined, opts: import("node_modules/@jbrowse/core/src/assemblyManager/assemblyManager.ts").AssemblyBaseOpts): Promise<{
618
606
  [x: string]: string;
619
607
  } | undefined>;
620
608
  getReverseRefNameMapForAdapter(adapterConf: {
621
609
  [x: string]: unknown;
622
- }, assemblyName: string | undefined, opts: {
623
- stopToken?: string;
624
- sessionId: string;
625
- }): Promise<{
610
+ }, assemblyName: string | undefined, opts: import("node_modules/@jbrowse/core/src/assemblyManager/assemblyManager.ts").AssemblyBaseOpts): Promise<{
626
611
  [x: string]: string;
627
612
  } | undefined>;
628
613
  isValidRefName(refName: string, assemblyName: string): boolean;
@@ -630,9 +615,9 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
630
615
  afterAttach(): void;
631
616
  removeAssembly(asm: import("@jbrowse/core/assemblyManager/assembly").Assembly): void;
632
617
  addAssembly(configuration: any): void;
633
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IModelType<{
634
- assemblies: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IModelType<{
635
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
618
+ } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IModelType<{
619
+ assemblies: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IModelType<{
620
+ configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
636
621
  }, {
637
622
  error: unknown;
638
623
  loadingP: Promise<void> | undefined;
@@ -640,6 +625,7 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
640
625
  refNameAliases: {
641
626
  [x: string]: string;
642
627
  } | undefined;
628
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
643
629
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
644
630
  } & {
645
631
  getConf(arg: string): any;
@@ -663,22 +649,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
663
649
  readonly refNames: string[] | undefined;
664
650
  } & {
665
651
  getCanonicalRefName(refName: string): string | undefined;
652
+ getCanonicalRefName2(refName: string): string;
666
653
  getRefNameColor(refName: string): string | undefined;
667
654
  isValidRefName(refName: string): boolean;
655
+ getSeqAdapterRefName(canonicalRefName: string): string;
668
656
  } & {
669
657
  setLoaded({ regions, refNameAliases, cytobands, }: {
670
- regions: import("@jbrowse/core/util/types").Region[];
658
+ regions: import("@jbrowse/core/util").Region[];
671
659
  refNameAliases: {
672
660
  [x: string]: string;
673
661
  };
674
662
  cytobands: import("@jbrowse/core/util").Feature[];
675
663
  }): void;
676
664
  setError(e: unknown): void;
677
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
665
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
678
666
  setRefNameAliases(aliases: {
679
667
  [x: string]: string;
680
668
  }): void;
681
669
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
670
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
682
671
  setLoadingP(p?: Promise<void>): void;
683
672
  load(): Promise<void>;
684
673
  loadPre(): Promise<void>;
@@ -697,17 +686,18 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
697
686
  [x: string]: string;
698
687
  }>;
699
688
  afterCreate(): void;
700
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
689
+ }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
701
690
  }, {
702
691
  readonly assemblyNameMap: Record<string, {
703
692
  configuration: any;
704
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
693
+ } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & {
705
694
  error: unknown;
706
695
  loadingP: Promise<void> | undefined;
707
696
  volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
708
697
  refNameAliases: {
709
698
  [x: string]: string;
710
699
  } | undefined;
700
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
711
701
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
712
702
  } & {
713
703
  getConf(arg: string): any;
@@ -731,22 +721,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
731
721
  readonly refNames: string[] | undefined;
732
722
  } & {
733
723
  getCanonicalRefName(refName: string): string | undefined;
724
+ getCanonicalRefName2(refName: string): string;
734
725
  getRefNameColor(refName: string): string | undefined;
735
726
  isValidRefName(refName: string): boolean;
727
+ getSeqAdapterRefName(canonicalRefName: string): string;
736
728
  } & {
737
729
  setLoaded({ regions, refNameAliases, cytobands, }: {
738
- regions: import("@jbrowse/core/util/types").Region[];
730
+ regions: import("@jbrowse/core/util").Region[];
739
731
  refNameAliases: {
740
732
  [x: string]: string;
741
733
  };
742
734
  cytobands: import("@jbrowse/core/util").Feature[];
743
735
  }): void;
744
736
  setError(e: unknown): void;
745
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
737
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
746
738
  setRefNameAliases(aliases: {
747
739
  [x: string]: string;
748
740
  }): void;
749
741
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
742
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
750
743
  setLoadingP(p?: Promise<void>): void;
751
744
  load(): Promise<void>;
752
745
  loadPre(): Promise<void>;
@@ -765,8 +758,8 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
765
758
  [x: string]: string;
766
759
  }>;
767
760
  afterCreate(): void;
768
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
769
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
761
+ } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
762
+ configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
770
763
  }, {
771
764
  error: unknown;
772
765
  loadingP: Promise<void> | undefined;
@@ -774,6 +767,7 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
774
767
  refNameAliases: {
775
768
  [x: string]: string;
776
769
  } | undefined;
770
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
777
771
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
778
772
  } & {
779
773
  getConf(arg: string): any;
@@ -797,22 +791,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
797
791
  readonly refNames: string[] | undefined;
798
792
  } & {
799
793
  getCanonicalRefName(refName: string): string | undefined;
794
+ getCanonicalRefName2(refName: string): string;
800
795
  getRefNameColor(refName: string): string | undefined;
801
796
  isValidRefName(refName: string): boolean;
797
+ getSeqAdapterRefName(canonicalRefName: string): string;
802
798
  } & {
803
799
  setLoaded({ regions, refNameAliases, cytobands, }: {
804
- regions: import("@jbrowse/core/util/types").Region[];
800
+ regions: import("@jbrowse/core/util").Region[];
805
801
  refNameAliases: {
806
802
  [x: string]: string;
807
803
  };
808
804
  cytobands: import("@jbrowse/core/util").Feature[];
809
805
  }): void;
810
806
  setError(e: unknown): void;
811
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
807
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
812
808
  setRefNameAliases(aliases: {
813
809
  [x: string]: string;
814
810
  }): void;
815
811
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
812
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
816
813
  setLoadingP(p?: Promise<void>): void;
817
814
  load(): Promise<void>;
818
815
  loadPre(): Promise<void>;
@@ -831,18 +828,20 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
831
828
  [x: string]: string;
832
829
  }>;
833
830
  afterCreate(): void;
834
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>>;
831
+ }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>>;
835
832
  } & {
836
833
  getCanonicalAssemblyName(asmName: string): string | undefined;
834
+ getCanonicalAssemblyName2(asmName: string): string;
837
835
  get(asmName: string): ({
838
836
  configuration: any;
839
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
837
+ } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & {
840
838
  error: unknown;
841
839
  loadingP: Promise<void> | undefined;
842
840
  volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
843
841
  refNameAliases: {
844
842
  [x: string]: string;
845
843
  } | undefined;
844
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
846
845
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
847
846
  } & {
848
847
  getConf(arg: string): any;
@@ -866,22 +865,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
866
865
  readonly refNames: string[] | undefined;
867
866
  } & {
868
867
  getCanonicalRefName(refName: string): string | undefined;
868
+ getCanonicalRefName2(refName: string): string;
869
869
  getRefNameColor(refName: string): string | undefined;
870
870
  isValidRefName(refName: string): boolean;
871
+ getSeqAdapterRefName(canonicalRefName: string): string;
871
872
  } & {
872
873
  setLoaded({ regions, refNameAliases, cytobands, }: {
873
- regions: import("@jbrowse/core/util/types").Region[];
874
+ regions: import("@jbrowse/core/util").Region[];
874
875
  refNameAliases: {
875
876
  [x: string]: string;
876
877
  };
877
878
  cytobands: import("@jbrowse/core/util").Feature[];
878
879
  }): void;
879
880
  setError(e: unknown): void;
880
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
881
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
881
882
  setRefNameAliases(aliases: {
882
883
  [x: string]: string;
883
884
  }): void;
884
885
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
886
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
885
887
  setLoadingP(p?: Promise<void>): void;
886
888
  load(): Promise<void>;
887
889
  loadPre(): Promise<void>;
@@ -900,8 +902,8 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
900
902
  [x: string]: string;
901
903
  }>;
902
904
  afterCreate(): void;
903
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
904
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
905
+ } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
906
+ configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
905
907
  }, {
906
908
  error: unknown;
907
909
  loadingP: Promise<void> | undefined;
@@ -909,6 +911,7 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
909
911
  refNameAliases: {
910
912
  [x: string]: string;
911
913
  } | undefined;
914
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
912
915
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
913
916
  } & {
914
917
  getConf(arg: string): any;
@@ -932,22 +935,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
932
935
  readonly refNames: string[] | undefined;
933
936
  } & {
934
937
  getCanonicalRefName(refName: string): string | undefined;
938
+ getCanonicalRefName2(refName: string): string;
935
939
  getRefNameColor(refName: string): string | undefined;
936
940
  isValidRefName(refName: string): boolean;
941
+ getSeqAdapterRefName(canonicalRefName: string): string;
937
942
  } & {
938
943
  setLoaded({ regions, refNameAliases, cytobands, }: {
939
- regions: import("@jbrowse/core/util/types").Region[];
944
+ regions: import("@jbrowse/core/util").Region[];
940
945
  refNameAliases: {
941
946
  [x: string]: string;
942
947
  };
943
948
  cytobands: import("@jbrowse/core/util").Feature[];
944
949
  }): void;
945
950
  setError(e: unknown): void;
946
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
951
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
947
952
  setRefNameAliases(aliases: {
948
953
  [x: string]: string;
949
954
  }): void;
950
955
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
956
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
951
957
  setLoadingP(p?: Promise<void>): void;
952
958
  load(): Promise<void>;
953
959
  loadPre(): Promise<void>;
@@ -966,20 +972,21 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
966
972
  [x: string]: string;
967
973
  }>;
968
974
  afterCreate(): void;
969
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined;
975
+ }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>) | undefined;
970
976
  readonly assemblyNamesList: any[];
971
977
  readonly assemblyList: import("@jbrowse/core/configuration").AnyConfigurationModel[];
972
978
  readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
973
979
  } & {
974
980
  waitForAssembly(assemblyName: string): Promise<({
975
981
  configuration: any;
976
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
982
+ } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & {
977
983
  error: unknown;
978
984
  loadingP: Promise<void> | undefined;
979
985
  volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
980
986
  refNameAliases: {
981
987
  [x: string]: string;
982
988
  } | undefined;
989
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
983
990
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
984
991
  } & {
985
992
  getConf(arg: string): any;
@@ -1003,22 +1010,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1003
1010
  readonly refNames: string[] | undefined;
1004
1011
  } & {
1005
1012
  getCanonicalRefName(refName: string): string | undefined;
1013
+ getCanonicalRefName2(refName: string): string;
1006
1014
  getRefNameColor(refName: string): string | undefined;
1007
1015
  isValidRefName(refName: string): boolean;
1016
+ getSeqAdapterRefName(canonicalRefName: string): string;
1008
1017
  } & {
1009
1018
  setLoaded({ regions, refNameAliases, cytobands, }: {
1010
- regions: import("@jbrowse/core/util/types").Region[];
1019
+ regions: import("@jbrowse/core/util").Region[];
1011
1020
  refNameAliases: {
1012
1021
  [x: string]: string;
1013
1022
  };
1014
1023
  cytobands: import("@jbrowse/core/util").Feature[];
1015
1024
  }): void;
1016
1025
  setError(e: unknown): void;
1017
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
1026
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
1018
1027
  setRefNameAliases(aliases: {
1019
1028
  [x: string]: string;
1020
1029
  }): void;
1021
1030
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
1031
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
1022
1032
  setLoadingP(p?: Promise<void>): void;
1023
1033
  load(): Promise<void>;
1024
1034
  loadPre(): Promise<void>;
@@ -1037,8 +1047,8 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1037
1047
  [x: string]: string;
1038
1048
  }>;
1039
1049
  afterCreate(): void;
1040
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
1041
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
1050
+ } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
1051
+ configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
1042
1052
  }, {
1043
1053
  error: unknown;
1044
1054
  loadingP: Promise<void> | undefined;
@@ -1046,6 +1056,7 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1046
1056
  refNameAliases: {
1047
1057
  [x: string]: string;
1048
1058
  } | undefined;
1059
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
1049
1060
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1050
1061
  } & {
1051
1062
  getConf(arg: string): any;
@@ -1069,22 +1080,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1069
1080
  readonly refNames: string[] | undefined;
1070
1081
  } & {
1071
1082
  getCanonicalRefName(refName: string): string | undefined;
1083
+ getCanonicalRefName2(refName: string): string;
1072
1084
  getRefNameColor(refName: string): string | undefined;
1073
1085
  isValidRefName(refName: string): boolean;
1086
+ getSeqAdapterRefName(canonicalRefName: string): string;
1074
1087
  } & {
1075
1088
  setLoaded({ regions, refNameAliases, cytobands, }: {
1076
- regions: import("@jbrowse/core/util/types").Region[];
1089
+ regions: import("@jbrowse/core/util").Region[];
1077
1090
  refNameAliases: {
1078
1091
  [x: string]: string;
1079
1092
  };
1080
1093
  cytobands: import("@jbrowse/core/util").Feature[];
1081
1094
  }): void;
1082
1095
  setError(e: unknown): void;
1083
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
1096
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
1084
1097
  setRefNameAliases(aliases: {
1085
1098
  [x: string]: string;
1086
1099
  }): void;
1087
1100
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
1101
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
1088
1102
  setLoadingP(p?: Promise<void>): void;
1089
1103
  load(): Promise<void>;
1090
1104
  loadPre(): Promise<void>;
@@ -1103,21 +1117,15 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1103
1117
  [x: string]: string;
1104
1118
  }>;
1105
1119
  afterCreate(): void;
1106
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined>;
1120
+ }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>) | undefined>;
1107
1121
  getRefNameMapForAdapter(adapterConf: {
1108
1122
  [x: string]: unknown;
1109
- }, assemblyName: string | undefined, opts: {
1110
- stopToken?: string;
1111
- sessionId: string;
1112
- }): Promise<{
1123
+ }, assemblyName: string | undefined, opts: import("node_modules/@jbrowse/core/src/assemblyManager/assemblyManager.ts").AssemblyBaseOpts): Promise<{
1113
1124
  [x: string]: string;
1114
1125
  } | undefined>;
1115
1126
  getReverseRefNameMapForAdapter(adapterConf: {
1116
1127
  [x: string]: unknown;
1117
- }, assemblyName: string | undefined, opts: {
1118
- stopToken?: string;
1119
- sessionId: string;
1120
- }): Promise<{
1128
+ }, assemblyName: string | undefined, opts: import("node_modules/@jbrowse/core/src/assemblyManager/assemblyManager.ts").AssemblyBaseOpts): Promise<{
1121
1129
  [x: string]: string;
1122
1130
  } | undefined>;
1123
1131
  isValidRefName(refName: string, assemblyName: string): boolean;
@@ -1125,26 +1133,26 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1125
1133
  afterAttach(): void;
1126
1134
  removeAssembly(asm: import("@jbrowse/core/assemblyManager/assembly").Assembly): void;
1127
1135
  addAssembly(configuration: any): void;
1128
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>, [undefined]>>;
1129
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1136
+ }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>, [undefined]>>;
1137
+ } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & {
1130
1138
  rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
1131
1139
  adminMode: boolean;
1132
1140
  error: unknown;
1133
- textSearchManager: import("@jbrowse/core/TextSearch/TextSearchManager").default;
1141
+ textSearchManager: import("@jbrowse/core/util").TextSearchManager;
1134
1142
  pluginManager: PluginManager;
1135
1143
  } & {
1136
1144
  setError(error: unknown): void;
1137
- setSession(sessionSnapshot?: import("mobx-state-tree").SnapshotIn<import("mobx-state-tree").IAnyType>): void;
1145
+ setSession(sessionSnapshot?: import("@jbrowse/mobx-state-tree").SnapshotIn<import("@jbrowse/mobx-state-tree").IAnyType>): void;
1138
1146
  setDefaultSession(): void;
1139
1147
  setSessionPath(path: string): void;
1140
1148
  renameCurrentSession(newName: string): void;
1141
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
1142
- jbrowse: import("mobx-state-tree").IAnyType;
1143
- session: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IAnyType>;
1144
- sessionPath: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
1145
- assemblyManager: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IModelType<{
1146
- assemblies: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IModelType<{
1147
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
1149
+ } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
1150
+ jbrowse: import("@jbrowse/mobx-state-tree").IAnyType;
1151
+ session: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IAnyType>;
1152
+ sessionPath: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
1153
+ assemblyManager: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IModelType<{
1154
+ assemblies: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IModelType<{
1155
+ configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
1148
1156
  }, {
1149
1157
  error: unknown;
1150
1158
  loadingP: Promise<void> | undefined;
@@ -1152,6 +1160,7 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1152
1160
  refNameAliases: {
1153
1161
  [x: string]: string;
1154
1162
  } | undefined;
1163
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
1155
1164
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1156
1165
  } & {
1157
1166
  getConf(arg: string): any;
@@ -1175,22 +1184,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1175
1184
  readonly refNames: string[] | undefined;
1176
1185
  } & {
1177
1186
  getCanonicalRefName(refName: string): string | undefined;
1187
+ getCanonicalRefName2(refName: string): string;
1178
1188
  getRefNameColor(refName: string): string | undefined;
1179
1189
  isValidRefName(refName: string): boolean;
1190
+ getSeqAdapterRefName(canonicalRefName: string): string;
1180
1191
  } & {
1181
1192
  setLoaded({ regions, refNameAliases, cytobands, }: {
1182
- regions: import("@jbrowse/core/util/types").Region[];
1193
+ regions: import("@jbrowse/core/util").Region[];
1183
1194
  refNameAliases: {
1184
1195
  [x: string]: string;
1185
1196
  };
1186
1197
  cytobands: import("@jbrowse/core/util").Feature[];
1187
1198
  }): void;
1188
1199
  setError(e: unknown): void;
1189
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
1200
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
1190
1201
  setRefNameAliases(aliases: {
1191
1202
  [x: string]: string;
1192
1203
  }): void;
1193
1204
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
1205
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
1194
1206
  setLoadingP(p?: Promise<void>): void;
1195
1207
  load(): Promise<void>;
1196
1208
  loadPre(): Promise<void>;
@@ -1209,17 +1221,18 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1209
1221
  [x: string]: string;
1210
1222
  }>;
1211
1223
  afterCreate(): void;
1212
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
1224
+ }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
1213
1225
  }, {
1214
1226
  readonly assemblyNameMap: Record<string, {
1215
1227
  configuration: any;
1216
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1228
+ } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & {
1217
1229
  error: unknown;
1218
1230
  loadingP: Promise<void> | undefined;
1219
1231
  volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1220
1232
  refNameAliases: {
1221
1233
  [x: string]: string;
1222
1234
  } | undefined;
1235
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
1223
1236
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1224
1237
  } & {
1225
1238
  getConf(arg: string): any;
@@ -1243,22 +1256,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1243
1256
  readonly refNames: string[] | undefined;
1244
1257
  } & {
1245
1258
  getCanonicalRefName(refName: string): string | undefined;
1259
+ getCanonicalRefName2(refName: string): string;
1246
1260
  getRefNameColor(refName: string): string | undefined;
1247
1261
  isValidRefName(refName: string): boolean;
1262
+ getSeqAdapterRefName(canonicalRefName: string): string;
1248
1263
  } & {
1249
1264
  setLoaded({ regions, refNameAliases, cytobands, }: {
1250
- regions: import("@jbrowse/core/util/types").Region[];
1265
+ regions: import("@jbrowse/core/util").Region[];
1251
1266
  refNameAliases: {
1252
1267
  [x: string]: string;
1253
1268
  };
1254
1269
  cytobands: import("@jbrowse/core/util").Feature[];
1255
1270
  }): void;
1256
1271
  setError(e: unknown): void;
1257
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
1272
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
1258
1273
  setRefNameAliases(aliases: {
1259
1274
  [x: string]: string;
1260
1275
  }): void;
1261
1276
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
1277
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
1262
1278
  setLoadingP(p?: Promise<void>): void;
1263
1279
  load(): Promise<void>;
1264
1280
  loadPre(): Promise<void>;
@@ -1277,8 +1293,8 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1277
1293
  [x: string]: string;
1278
1294
  }>;
1279
1295
  afterCreate(): void;
1280
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
1281
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
1296
+ } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
1297
+ configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
1282
1298
  }, {
1283
1299
  error: unknown;
1284
1300
  loadingP: Promise<void> | undefined;
@@ -1286,6 +1302,7 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1286
1302
  refNameAliases: {
1287
1303
  [x: string]: string;
1288
1304
  } | undefined;
1305
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
1289
1306
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1290
1307
  } & {
1291
1308
  getConf(arg: string): any;
@@ -1309,22 +1326,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1309
1326
  readonly refNames: string[] | undefined;
1310
1327
  } & {
1311
1328
  getCanonicalRefName(refName: string): string | undefined;
1329
+ getCanonicalRefName2(refName: string): string;
1312
1330
  getRefNameColor(refName: string): string | undefined;
1313
1331
  isValidRefName(refName: string): boolean;
1332
+ getSeqAdapterRefName(canonicalRefName: string): string;
1314
1333
  } & {
1315
1334
  setLoaded({ regions, refNameAliases, cytobands, }: {
1316
- regions: import("@jbrowse/core/util/types").Region[];
1335
+ regions: import("@jbrowse/core/util").Region[];
1317
1336
  refNameAliases: {
1318
1337
  [x: string]: string;
1319
1338
  };
1320
1339
  cytobands: import("@jbrowse/core/util").Feature[];
1321
1340
  }): void;
1322
1341
  setError(e: unknown): void;
1323
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
1342
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
1324
1343
  setRefNameAliases(aliases: {
1325
1344
  [x: string]: string;
1326
1345
  }): void;
1327
1346
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
1347
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
1328
1348
  setLoadingP(p?: Promise<void>): void;
1329
1349
  load(): Promise<void>;
1330
1350
  loadPre(): Promise<void>;
@@ -1343,18 +1363,20 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1343
1363
  [x: string]: string;
1344
1364
  }>;
1345
1365
  afterCreate(): void;
1346
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>>;
1366
+ }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>>;
1347
1367
  } & {
1348
1368
  getCanonicalAssemblyName(asmName: string): string | undefined;
1369
+ getCanonicalAssemblyName2(asmName: string): string;
1349
1370
  get(asmName: string): ({
1350
1371
  configuration: any;
1351
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1372
+ } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & {
1352
1373
  error: unknown;
1353
1374
  loadingP: Promise<void> | undefined;
1354
1375
  volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1355
1376
  refNameAliases: {
1356
1377
  [x: string]: string;
1357
1378
  } | undefined;
1379
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
1358
1380
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1359
1381
  } & {
1360
1382
  getConf(arg: string): any;
@@ -1378,22 +1400,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1378
1400
  readonly refNames: string[] | undefined;
1379
1401
  } & {
1380
1402
  getCanonicalRefName(refName: string): string | undefined;
1403
+ getCanonicalRefName2(refName: string): string;
1381
1404
  getRefNameColor(refName: string): string | undefined;
1382
1405
  isValidRefName(refName: string): boolean;
1406
+ getSeqAdapterRefName(canonicalRefName: string): string;
1383
1407
  } & {
1384
1408
  setLoaded({ regions, refNameAliases, cytobands, }: {
1385
- regions: import("@jbrowse/core/util/types").Region[];
1409
+ regions: import("@jbrowse/core/util").Region[];
1386
1410
  refNameAliases: {
1387
1411
  [x: string]: string;
1388
1412
  };
1389
1413
  cytobands: import("@jbrowse/core/util").Feature[];
1390
1414
  }): void;
1391
1415
  setError(e: unknown): void;
1392
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
1416
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
1393
1417
  setRefNameAliases(aliases: {
1394
1418
  [x: string]: string;
1395
1419
  }): void;
1396
1420
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
1421
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
1397
1422
  setLoadingP(p?: Promise<void>): void;
1398
1423
  load(): Promise<void>;
1399
1424
  loadPre(): Promise<void>;
@@ -1412,8 +1437,8 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1412
1437
  [x: string]: string;
1413
1438
  }>;
1414
1439
  afterCreate(): void;
1415
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
1416
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
1440
+ } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
1441
+ configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
1417
1442
  }, {
1418
1443
  error: unknown;
1419
1444
  loadingP: Promise<void> | undefined;
@@ -1421,6 +1446,7 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1421
1446
  refNameAliases: {
1422
1447
  [x: string]: string;
1423
1448
  } | undefined;
1449
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
1424
1450
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1425
1451
  } & {
1426
1452
  getConf(arg: string): any;
@@ -1444,22 +1470,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1444
1470
  readonly refNames: string[] | undefined;
1445
1471
  } & {
1446
1472
  getCanonicalRefName(refName: string): string | undefined;
1473
+ getCanonicalRefName2(refName: string): string;
1447
1474
  getRefNameColor(refName: string): string | undefined;
1448
1475
  isValidRefName(refName: string): boolean;
1476
+ getSeqAdapterRefName(canonicalRefName: string): string;
1449
1477
  } & {
1450
1478
  setLoaded({ regions, refNameAliases, cytobands, }: {
1451
- regions: import("@jbrowse/core/util/types").Region[];
1479
+ regions: import("@jbrowse/core/util").Region[];
1452
1480
  refNameAliases: {
1453
1481
  [x: string]: string;
1454
1482
  };
1455
1483
  cytobands: import("@jbrowse/core/util").Feature[];
1456
1484
  }): void;
1457
1485
  setError(e: unknown): void;
1458
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
1486
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
1459
1487
  setRefNameAliases(aliases: {
1460
1488
  [x: string]: string;
1461
1489
  }): void;
1462
1490
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
1491
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
1463
1492
  setLoadingP(p?: Promise<void>): void;
1464
1493
  load(): Promise<void>;
1465
1494
  loadPre(): Promise<void>;
@@ -1478,20 +1507,21 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1478
1507
  [x: string]: string;
1479
1508
  }>;
1480
1509
  afterCreate(): void;
1481
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined;
1510
+ }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>) | undefined;
1482
1511
  readonly assemblyNamesList: any[];
1483
1512
  readonly assemblyList: import("@jbrowse/core/configuration").AnyConfigurationModel[];
1484
1513
  readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
1485
1514
  } & {
1486
1515
  waitForAssembly(assemblyName: string): Promise<({
1487
1516
  configuration: any;
1488
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1517
+ } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & {
1489
1518
  error: unknown;
1490
1519
  loadingP: Promise<void> | undefined;
1491
1520
  volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1492
1521
  refNameAliases: {
1493
1522
  [x: string]: string;
1494
1523
  } | undefined;
1524
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
1495
1525
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1496
1526
  } & {
1497
1527
  getConf(arg: string): any;
@@ -1515,22 +1545,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1515
1545
  readonly refNames: string[] | undefined;
1516
1546
  } & {
1517
1547
  getCanonicalRefName(refName: string): string | undefined;
1548
+ getCanonicalRefName2(refName: string): string;
1518
1549
  getRefNameColor(refName: string): string | undefined;
1519
1550
  isValidRefName(refName: string): boolean;
1551
+ getSeqAdapterRefName(canonicalRefName: string): string;
1520
1552
  } & {
1521
1553
  setLoaded({ regions, refNameAliases, cytobands, }: {
1522
- regions: import("@jbrowse/core/util/types").Region[];
1554
+ regions: import("@jbrowse/core/util").Region[];
1523
1555
  refNameAliases: {
1524
1556
  [x: string]: string;
1525
1557
  };
1526
1558
  cytobands: import("@jbrowse/core/util").Feature[];
1527
1559
  }): void;
1528
1560
  setError(e: unknown): void;
1529
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
1561
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
1530
1562
  setRefNameAliases(aliases: {
1531
1563
  [x: string]: string;
1532
1564
  }): void;
1533
1565
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
1566
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
1534
1567
  setLoadingP(p?: Promise<void>): void;
1535
1568
  load(): Promise<void>;
1536
1569
  loadPre(): Promise<void>;
@@ -1549,8 +1582,8 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1549
1582
  [x: string]: string;
1550
1583
  }>;
1551
1584
  afterCreate(): void;
1552
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
1553
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
1585
+ } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
1586
+ configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
1554
1587
  }, {
1555
1588
  error: unknown;
1556
1589
  loadingP: Promise<void> | undefined;
@@ -1558,6 +1591,7 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1558
1591
  refNameAliases: {
1559
1592
  [x: string]: string;
1560
1593
  } | undefined;
1594
+ canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
1561
1595
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1562
1596
  } & {
1563
1597
  getConf(arg: string): any;
@@ -1581,22 +1615,25 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1581
1615
  readonly refNames: string[] | undefined;
1582
1616
  } & {
1583
1617
  getCanonicalRefName(refName: string): string | undefined;
1618
+ getCanonicalRefName2(refName: string): string;
1584
1619
  getRefNameColor(refName: string): string | undefined;
1585
1620
  isValidRefName(refName: string): boolean;
1621
+ getSeqAdapterRefName(canonicalRefName: string): string;
1586
1622
  } & {
1587
1623
  setLoaded({ regions, refNameAliases, cytobands, }: {
1588
- regions: import("@jbrowse/core/util/types").Region[];
1624
+ regions: import("@jbrowse/core/util").Region[];
1589
1625
  refNameAliases: {
1590
1626
  [x: string]: string;
1591
1627
  };
1592
1628
  cytobands: import("@jbrowse/core/util").Feature[];
1593
1629
  }): void;
1594
1630
  setError(e: unknown): void;
1595
- setRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
1631
+ setRegions(regions: import("@jbrowse/core/util").Region[]): void;
1596
1632
  setRefNameAliases(aliases: {
1597
1633
  [x: string]: string;
1598
1634
  }): void;
1599
1635
  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
1636
+ setCanonicalToSeqAdapterRefNames(map: Record<string, string>): void;
1600
1637
  setLoadingP(p?: Promise<void>): void;
1601
1638
  load(): Promise<void>;
1602
1639
  loadPre(): Promise<void>;
@@ -1615,21 +1652,15 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1615
1652
  [x: string]: string;
1616
1653
  }>;
1617
1654
  afterCreate(): void;
1618
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined>;
1655
+ }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>) | undefined>;
1619
1656
  getRefNameMapForAdapter(adapterConf: {
1620
1657
  [x: string]: unknown;
1621
- }, assemblyName: string | undefined, opts: {
1622
- stopToken?: string;
1623
- sessionId: string;
1624
- }): Promise<{
1658
+ }, assemblyName: string | undefined, opts: import("node_modules/@jbrowse/core/src/assemblyManager/assemblyManager.ts").AssemblyBaseOpts): Promise<{
1625
1659
  [x: string]: string;
1626
1660
  } | undefined>;
1627
1661
  getReverseRefNameMapForAdapter(adapterConf: {
1628
1662
  [x: string]: unknown;
1629
- }, assemblyName: string | undefined, opts: {
1630
- stopToken?: string;
1631
- sessionId: string;
1632
- }): Promise<{
1663
+ }, assemblyName: string | undefined, opts: import("node_modules/@jbrowse/core/src/assemblyManager/assemblyManager.ts").AssemblyBaseOpts): Promise<{
1633
1664
  [x: string]: string;
1634
1665
  } | undefined>;
1635
1666
  isValidRefName(refName: string, assemblyName: string): boolean;
@@ -1637,36 +1668,32 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1637
1668
  afterAttach(): void;
1638
1669
  removeAssembly(asm: import("@jbrowse/core/assemblyManager/assembly").Assembly): void;
1639
1670
  addAssembly(configuration: any): void;
1640
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>, [undefined]>;
1671
+ }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>, [undefined]>;
1641
1672
  }, {
1642
1673
  rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
1643
1674
  adminMode: boolean;
1644
1675
  error: unknown;
1645
- textSearchManager: import("@jbrowse/core/TextSearch/TextSearchManager").default;
1676
+ textSearchManager: import("@jbrowse/core/util").TextSearchManager;
1646
1677
  pluginManager: PluginManager;
1647
1678
  } & {
1648
1679
  setError(error: unknown): void;
1649
- setSession(sessionSnapshot?: import("mobx-state-tree").SnapshotIn<import("mobx-state-tree").IAnyType>): void;
1680
+ setSession(sessionSnapshot?: import("@jbrowse/mobx-state-tree").SnapshotIn<import("@jbrowse/mobx-state-tree").IAnyType>): void;
1650
1681
  setDefaultSession(): void;
1651
1682
  setSessionPath(path: string): void;
1652
1683
  renameCurrentSession(newName: string): void;
1653
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
1684
+ }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
1654
1685
  } & {
1655
1686
  readonly jbrowse: any;
1656
1687
  readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
1657
1688
  readonly configuration: {
1658
1689
  [x: string]: any;
1659
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1690
+ } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & {
1660
1691
  setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
1661
1692
  [x: string]: any;
1662
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1663
- setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
1664
- [x: string]: any;
1665
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & any & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
1666
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
1667
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>;
1693
+ } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & any & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
1694
+ } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>;
1668
1695
  readonly adminMode: boolean;
1669
- readonly textSearchManager: import("@jbrowse/core/TextSearch/TextSearchManager").default;
1696
+ readonly textSearchManager: import("@jbrowse/core/util").TextSearchManager;
1670
1697
  } & {
1671
1698
  readonly assemblies: Instance<import("@jbrowse/core/assemblyManager").BaseAssemblyConfigSchema>[];
1672
1699
  } & {
@@ -1686,127 +1713,39 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1686
1713
  minimizeWidgetDrawer(): void;
1687
1714
  showWidgetDrawer(): void;
1688
1715
  hideAllWidgets(): void;
1689
- editConfiguration(configuration: import("@jbrowse/core/configuration").AnyConfigurationModel): void;
1716
+ editConfiguration(configuration: import("@jbrowse/core/configuration").AnyConfigurationModel | {
1717
+ trackId: string;
1718
+ }): void;
1690
1719
  afterAttach(): void;
1691
1720
  } & {
1692
1721
  readonly connections: import("@jbrowse/core/pluggableElementTypes/models/baseConnectionConfig").BaseConnectionConfigModel[];
1693
1722
  } & {
1694
- makeConnection(configuration: import("@jbrowse/core/configuration").AnyConfigurationModel, initialSnapshot?: {}): ({
1695
- name: string;
1696
- tracks: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IAnyModelType> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>>;
1697
- configuration: {
1698
- [x: string]: any;
1699
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1700
- setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
1701
- [x: string]: any;
1702
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1703
- setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
1704
- [x: string]: any;
1705
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & any & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
1706
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
1707
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
1708
- name: {
1709
- type: string;
1710
- defaultValue: string;
1711
- description: string;
1712
- };
1713
- assemblyNames: {
1714
- type: string;
1715
- defaultValue: never[];
1716
- description: string;
1717
- };
1718
- }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "connectionId">>>;
1719
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1720
- connect(_arg: import("@jbrowse/core/configuration").AnyConfigurationModel): void;
1721
- } & {
1722
- afterAttach(): void;
1723
- addTrackConf(trackConf: ({
1724
- [x: string]: any;
1725
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1726
- setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
1727
- [x: string]: any;
1728
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1729
- setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
1730
- [x: string]: any;
1731
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & any & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
1732
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
1733
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>) | Record<string, unknown>): any;
1734
- addTrackConfs(trackConfs: (({
1735
- [x: string]: any;
1736
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1737
- setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
1738
- [x: string]: any;
1739
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1740
- setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
1741
- [x: string]: any;
1742
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & any & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
1743
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
1744
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>) | Record<string, unknown>)[]): void;
1745
- setTrackConfs(trackConfs: import("@jbrowse/core/configuration").AnyConfigurationModel[]): void;
1746
- clear(): void;
1747
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
1748
- name: import("mobx-state-tree").ISimpleType<string>;
1749
- tracks: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>;
1750
- configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
1751
- name: {
1752
- type: string;
1753
- defaultValue: string;
1754
- description: string;
1755
- };
1756
- assemblyNames: {
1757
- type: string;
1758
- defaultValue: never[];
1759
- description: string;
1760
- };
1761
- }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "connectionId">>;
1762
- }, {
1763
- connect(_arg: import("@jbrowse/core/configuration").AnyConfigurationModel): void;
1764
- } & {
1765
- afterAttach(): void;
1766
- addTrackConf(trackConf: ({
1767
- [x: string]: any;
1768
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1769
- setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
1770
- [x: string]: any;
1771
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1772
- setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
1773
- [x: string]: any;
1774
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & any & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
1775
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
1776
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>) | Record<string, unknown>): any;
1777
- addTrackConfs(trackConfs: (({
1778
- [x: string]: any;
1779
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1780
- setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
1781
- [x: string]: any;
1782
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1783
- setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
1784
- [x: string]: any;
1785
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & any & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
1786
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
1787
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>) | Record<string, unknown>)[]): void;
1788
- setTrackConfs(trackConfs: import("@jbrowse/core/configuration").AnyConfigurationModel[]): void;
1789
- clear(): void;
1790
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined;
1723
+ makeConnection(configuration: import("@jbrowse/core/configuration").AnyConfigurationModel, initialSnapshot?: {}): any;
1791
1724
  prepareToBreakConnection(configuration: import("@jbrowse/core/configuration").AnyConfigurationModel): (Record<string, number> | (() => void))[] | undefined;
1792
1725
  breakConnection(configuration: import("@jbrowse/core/configuration").AnyConfigurationModel): void;
1793
1726
  deleteConnection(configuration: import("@jbrowse/core/configuration").AnyConfigurationModel): any;
1794
1727
  addConnectionConf(connectionConf: import("@jbrowse/core/configuration").AnyConfigurationModel): any;
1795
1728
  clearConnections(): void;
1796
1729
  } & {
1797
- queueOfDialogs: [import("@jbrowse/core/util/types").DialogComponentType, unknown][];
1730
+ queueOfDialogs: [import("@jbrowse/core/util").DialogComponentType, unknown][];
1798
1731
  } & {
1799
- readonly DialogComponent: import("@jbrowse/core/util/types").DialogComponentType | undefined;
1732
+ readonly DialogComponent: import("@jbrowse/core/util").DialogComponentType | undefined;
1800
1733
  readonly DialogProps: unknown;
1801
1734
  } & {
1802
1735
  removeActiveDialog(): void;
1803
- queueDialog(cb: (doneCallback: () => void) => [import("@jbrowse/core/util/types").DialogComponentType, unknown]): void;
1736
+ queueDialog(cb: (doneCallback: () => void) => [import("@jbrowse/core/util").DialogComponentType, unknown]): void;
1804
1737
  } & {
1805
- getReferring(object: import("mobx-state-tree").IAnyStateTreeNode): import("@jbrowse/product-core").ReferringNode[];
1738
+ getReferring(object: import("@jbrowse/mobx-state-tree").IAnyStateTreeNode): import("@jbrowse/product-core").ReferringNode[];
1806
1739
  } & {
1807
1740
  removeReferring(referring: import("@jbrowse/product-core").ReferringNode[], track: import("@jbrowse/core/pluggableElementTypes").BaseTrackConfig, callbacks: ((arg: string) => void)[], dereferenceTypeCount: Record<string, number>): void;
1808
1741
  } & {
1809
1742
  readonly tracks: import("@jbrowse/core/configuration").AnyConfigurationModel[];
1743
+ readonly assemblies: {
1744
+ sequence: {
1745
+ trackId: string;
1746
+ };
1747
+ }[];
1748
+ readonly tracksById: Record<string, import("@jbrowse/core/configuration").AnyConfigurationModel>;
1810
1749
  } & {
1811
1750
  addTrackConf(trackConf: import("@jbrowse/core/configuration").AnyConfiguration): any;
1812
1751
  deleteTrackConf(trackConf: import("@jbrowse/core/configuration").AnyConfigurationModel): any;
@@ -1820,9 +1759,9 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1820
1759
  } & {
1821
1760
  readonly snackbarMessageSet: Map<string, import("@jbrowse/core/ui/SnackbarModel").SnackbarMessage>;
1822
1761
  } & {
1823
- notify(message: string, level?: import("@jbrowse/core/util/types").NotificationLevel, action?: import("@jbrowse/core/util/types").SnackAction): void;
1762
+ notify(message: string, level?: import("@jbrowse/core/util").NotificationLevel, action?: import("@jbrowse/core/util").SnackAction): void;
1824
1763
  notifyError(errorMessage: string, error?: unknown, extra?: unknown): void;
1825
- pushSnackbarMessage(message: string, level?: import("@jbrowse/core/util/types").NotificationLevel, action?: import("@jbrowse/core/util/types").SnackAction): void;
1764
+ pushSnackbarMessage(message: string, level?: import("@jbrowse/core/util").NotificationLevel, action?: import("@jbrowse/core/util").SnackAction): void;
1826
1765
  popSnackbarMessage(): import("@jbrowse/core/ui/SnackbarModel").SnackbarMessage | undefined;
1827
1766
  removeSnackbarMessage(message: string): void;
1828
1767
  } & {
@@ -1839,8 +1778,8 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1839
1778
  type: string;
1840
1779
  offsetPx: number;
1841
1780
  bpPerPx: number;
1842
- displayedRegions: import("@jbrowse/core/util/types").Region[] & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IType<import("@jbrowse/core/util/types").Region[], import("@jbrowse/core/util/types").Region[], import("@jbrowse/core/util/types").Region[]>, [undefined]>>;
1843
- tracks: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IAnyType> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>>;
1781
+ displayedRegions: import("@jbrowse/core/util").Region[] & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[]>, [undefined]>>;
1782
+ tracks: import("@jbrowse/mobx-state-tree").IMSTArray<import("@jbrowse/mobx-state-tree").IAnyType> & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>>;
1844
1783
  hideHeader: boolean;
1845
1784
  hideHeaderOverview: boolean;
1846
1785
  hideNoTracksActive: boolean;
@@ -1849,14 +1788,14 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1849
1788
  showCytobandsSetting: boolean;
1850
1789
  trackLabels: string;
1851
1790
  showGridlines: boolean;
1852
- highlight: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType>> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType>>, [undefined]>>;
1791
+ highlight: import("@jbrowse/mobx-state-tree").IMSTArray<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType>> & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType>>, [undefined]>>;
1853
1792
  colorByCDS: boolean;
1854
1793
  showTrackOutlines: boolean;
1855
- init: (import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined>>) | undefined;
1856
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1794
+ init: (import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined>>) | undefined;
1795
+ } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & {
1857
1796
  width: number;
1858
1797
  } & {
1859
- menuItems(): import("@jbrowse/core/ui").MenuItem[];
1798
+ menuItems(): MenuItem[];
1860
1799
  } & {
1861
1800
  setDisplayName(name: string): void;
1862
1801
  setWidth(newWidth: number): void;
@@ -1865,14 +1804,14 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1865
1804
  volatileWidth: number | undefined;
1866
1805
  minimumBlockWidth: number;
1867
1806
  draggingTrackId: undefined | string;
1807
+ lastTrackDragY: undefined | number;
1868
1808
  volatileError: unknown;
1869
- afterDisplayedRegionsSetCallbacks: (() => void)[];
1870
1809
  scaleFactor: number;
1871
1810
  trackRefs: Record<string, HTMLDivElement>;
1872
1811
  coarseDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
1873
1812
  coarseTotalBp: number;
1874
- leftOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset;
1875
- rightOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset;
1813
+ leftOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset;
1814
+ rightOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset;
1876
1815
  } & {
1877
1816
  readonly pinnedTracks: any[];
1878
1817
  readonly unpinnedTracks: any[];
@@ -1886,7 +1825,7 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1886
1825
  readonly rubberbandTop: number;
1887
1826
  readonly pinnedTracksTop: number;
1888
1827
  } & {
1889
- scaleBarDisplayPrefix(): string | undefined;
1828
+ scalebarDisplayPrefix(): string | undefined;
1890
1829
  MiniControlsComponent(): React.FC<any>;
1891
1830
  HeaderComponent(): React.FC<any>;
1892
1831
  readonly assembliesNotFound: string | undefined;
@@ -1894,7 +1833,11 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1894
1833
  readonly assembliesInitialized: boolean;
1895
1834
  readonly initialized: boolean;
1896
1835
  readonly hasDisplayedRegions: boolean;
1897
- readonly scaleBarHeight: number;
1836
+ readonly loadingMessage: "Loading" | undefined;
1837
+ readonly hasSomethingToShow: boolean;
1838
+ readonly showLoading: boolean;
1839
+ readonly showImportForm: boolean;
1840
+ readonly scalebarHeight: number;
1898
1841
  readonly headerHeight: number;
1899
1842
  readonly trackHeights: number;
1900
1843
  readonly trackHeightsWithResizeHandles: number;
@@ -1910,12 +1853,12 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1910
1853
  searchScope(assemblyName: string): {
1911
1854
  assemblyName: string;
1912
1855
  includeAggregateIndexes: boolean;
1913
- tracks: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IAnyType> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>>;
1856
+ tracks: import("@jbrowse/mobx-state-tree").IMSTArray<import("@jbrowse/mobx-state-tree").IAnyType> & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>>;
1914
1857
  };
1858
+ readonly trackMap: Map<any, any>;
1915
1859
  getTrack(id: string): any;
1916
1860
  rankSearchResults(results: import("@jbrowse/core/TextSearch/BaseResults").default[]): import("@jbrowse/core/TextSearch/BaseResults").default[];
1917
- rewriteOnClicks(trackType: string, viewMenuActions: import("@jbrowse/core/ui").MenuItem[]): void;
1918
- readonly trackTypeActions: Map<string, import("@jbrowse/core/ui").MenuItem[]>;
1861
+ readonly trackTypeActions: Map<string, MenuItem[]>;
1919
1862
  } & {
1920
1863
  setShowTrackOutlines(arg: boolean): void;
1921
1864
  setColorByCDS(flag: boolean): void;
@@ -1926,52 +1869,44 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1926
1869
  setHideHeaderOverview(b: boolean): void;
1927
1870
  setHideNoTracksActive(b: boolean): void;
1928
1871
  setShowGridlines(b: boolean): void;
1929
- addToHighlights(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType): void;
1930
- setHighlight(highlight?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType[]): void;
1931
- removeHighlight(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType): void;
1872
+ addToHighlights(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType): void;
1873
+ setHighlight(highlight?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType[]): void;
1874
+ removeHighlight(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType): void;
1932
1875
  scrollTo(offsetPx: number): number;
1933
1876
  zoomTo(bpPerPx: number, offset?: number, centerAtOffset?: boolean): number;
1934
- setOffsets(left?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset, right?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset): void;
1877
+ setOffsets(left?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset, right?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): void;
1935
1878
  setSearchResults(searchResults: import("@jbrowse/core/TextSearch/BaseResults").default[], searchQuery: string, assemblyName?: string): void;
1936
1879
  setNewView(bpPerPx: number, offsetPx: number): void;
1937
1880
  horizontallyFlip(): void;
1938
1881
  showTrack(trackId: string, initialSnapshot?: {}, displayInitialSnapshot?: {}): any;
1939
- hideTrack(trackId: string): number;
1882
+ hideTrack(trackId: string): 0 | 1;
1940
1883
  } & {
1941
1884
  moveTrackDown(id: string): void;
1942
1885
  moveTrackUp(id: string): void;
1943
1886
  moveTrackToTop(id: string): void;
1944
1887
  moveTrackToBottom(id: string): void;
1945
1888
  moveTrack(movingId: string, targetId: string): void;
1946
- toggleTrack(trackId: string): boolean;
1889
+ toggleTrack(trackId: string): void;
1947
1890
  setTrackLabels(setting: "overlapping" | "offset" | "hidden"): void;
1948
1891
  setShowCenterLine(b: boolean): void;
1949
- setDisplayedRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
1950
- activateTrackSelector(): import("@jbrowse/core/util/types").Widget;
1951
- getSelectedRegions(leftOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset, rightOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset): {
1892
+ setDisplayedRegions(regions: import("@jbrowse/core/util").Region[]): void;
1893
+ activateTrackSelector(): import("@jbrowse/core/util").Widget;
1894
+ getSelectedRegions(leftOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset, rightOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): {
1895
+ assemblyName: string;
1896
+ refName: string;
1952
1897
  start: number;
1953
1898
  end: number;
1954
- type: string;
1955
- regionNumber?: number;
1956
- reversed?: boolean;
1957
- refName: string;
1958
- assemblyName: string;
1959
- key: string;
1960
- offsetPx: number;
1961
- widthPx: number;
1962
- variant?: string;
1963
- isLeftEndOfDisplayedRegion?: boolean;
1964
1899
  }[];
1965
- afterDisplayedRegionsSet(cb: () => void): void;
1966
1900
  horizontalScroll(distance: number): number;
1967
1901
  center(): void;
1968
1902
  showAllRegions(): void;
1969
1903
  showAllRegionsInAssembly(assemblyName?: string): void;
1970
1904
  setDraggingTrackId(idx?: string): void;
1905
+ setLastTrackDragY(y: number): void;
1971
1906
  setScaleFactor(factor: number): void;
1972
1907
  clearView(): void;
1973
- setInit(arg?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState): void;
1974
- exportSvg(opts?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").ExportSvgOptions): Promise<void>;
1908
+ setInit(arg?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState): void;
1909
+ exportSvg(opts?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").ExportSvgOptions): Promise<void>;
1975
1910
  } & {
1976
1911
  slide: (viewWidths: number) => void;
1977
1912
  } & {
@@ -1982,17 +1917,18 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
1982
1917
  readonly anyCytobandsExist: boolean;
1983
1918
  readonly cytobandOffset: number;
1984
1919
  } & {
1985
- menuItems(): import("@jbrowse/core/ui").MenuItem[];
1920
+ menuItems(): MenuItem[];
1986
1921
  } & {
1987
1922
  readonly staticBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
1988
1923
  readonly dynamicBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
1989
1924
  readonly roundedDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
1990
1925
  readonly visibleLocStrings: string;
1991
1926
  readonly coarseVisibleLocStrings: string;
1927
+ readonly coarseTotalBpDisplayStr: string;
1992
1928
  } & {
1993
1929
  setCoarseDynamicBlocks(blocks: import("@jbrowse/core/util/blockTypes").BlockSet): void;
1994
1930
  } & {
1995
- moveTo(start?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset, end?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset): void;
1931
+ moveTo(start?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset, end?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): void;
1996
1932
  navToLocString(input: string, optAssemblyName?: string, grow?: number): Promise<void>;
1997
1933
  navToSearchString({ input, assembly, }: {
1998
1934
  input: string;
@@ -2000,10 +1936,10 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2000
1936
  }): Promise<void>;
2001
1937
  navToLocation(parsedLocString: import("@jbrowse/core/util").ParsedLocString, assemblyName?: string, grow?: number): Promise<void>;
2002
1938
  navToLocations(regions: import("@jbrowse/core/util").ParsedLocString[], assemblyName?: string, grow?: number): Promise<void>;
2003
- navTo(query: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").NavLocation): void;
2004
- navToMultiple(locations: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").NavLocation[]): void;
1939
+ navTo(query: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").NavLocation): void;
1940
+ navToMultiple(locations: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").NavLocation[]): void;
2005
1941
  } & {
2006
- rubberBandMenuItems(): import("@jbrowse/core/ui").MenuItem[];
1942
+ rubberBandMenuItems(): MenuItem[];
2007
1943
  bpToPx({ refName, coord, regionNumber, }: {
2008
1944
  refName: string;
2009
1945
  coord: number;
@@ -2035,36 +1971,39 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2035
1971
  end: number;
2036
1972
  reversed?: boolean;
2037
1973
  } | undefined;
1974
+ readonly visibleRegions: import("@jbrowse/core/util/blockTypes").BaseBlock[];
1975
+ } & {
1976
+ rubberbandClickMenuItems(clickOffset: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): MenuItem[];
2038
1977
  } & {
2039
1978
  afterCreate(): void;
2040
1979
  afterAttach(): void;
2041
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
2042
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
2043
- displayName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
2044
- minimized: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2045
- } & {
2046
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
2047
- type: import("mobx-state-tree").IType<string | undefined, string, string>;
2048
- offsetPx: import("mobx-state-tree").IType<number | undefined, number, number>;
2049
- bpPerPx: import("mobx-state-tree").IType<number | undefined, number, number>;
2050
- displayedRegions: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IType<import("@jbrowse/core/util/types").Region[], import("@jbrowse/core/util/types").Region[], import("@jbrowse/core/util/types").Region[]>, [undefined]>;
2051
- tracks: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>;
2052
- hideHeader: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2053
- hideHeaderOverview: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2054
- hideNoTracksActive: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2055
- trackSelectorType: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
2056
- showCenterLine: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2057
- showCytobandsSetting: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2058
- trackLabels: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
2059
- showGridlines: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2060
- highlight: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType>>, [undefined]>;
2061
- colorByCDS: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2062
- showTrackOutlines: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2063
- init: import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined>;
1980
+ } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
1981
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
1982
+ displayName: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
1983
+ minimized: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
1984
+ } & {
1985
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
1986
+ type: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
1987
+ offsetPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
1988
+ bpPerPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
1989
+ displayedRegions: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[]>, [undefined]>;
1990
+ tracks: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
1991
+ hideHeader: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
1992
+ hideHeaderOverview: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
1993
+ hideNoTracksActive: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
1994
+ trackSelectorType: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
1995
+ showCenterLine: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
1996
+ showCytobandsSetting: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
1997
+ trackLabels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
1998
+ showGridlines: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
1999
+ highlight: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType>>, [undefined]>;
2000
+ colorByCDS: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2001
+ showTrackOutlines: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2002
+ init: import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined>;
2064
2003
  }, {
2065
2004
  width: number;
2066
2005
  } & {
2067
- menuItems(): import("@jbrowse/core/ui").MenuItem[];
2006
+ menuItems(): MenuItem[];
2068
2007
  } & {
2069
2008
  setDisplayName(name: string): void;
2070
2009
  setWidth(newWidth: number): void;
@@ -2073,14 +2012,14 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2073
2012
  volatileWidth: number | undefined;
2074
2013
  minimumBlockWidth: number;
2075
2014
  draggingTrackId: undefined | string;
2015
+ lastTrackDragY: undefined | number;
2076
2016
  volatileError: unknown;
2077
- afterDisplayedRegionsSetCallbacks: (() => void)[];
2078
2017
  scaleFactor: number;
2079
2018
  trackRefs: Record<string, HTMLDivElement>;
2080
2019
  coarseDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
2081
2020
  coarseTotalBp: number;
2082
- leftOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset;
2083
- rightOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset;
2021
+ leftOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset;
2022
+ rightOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset;
2084
2023
  } & {
2085
2024
  readonly pinnedTracks: any[];
2086
2025
  readonly unpinnedTracks: any[];
@@ -2094,7 +2033,7 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2094
2033
  readonly rubberbandTop: number;
2095
2034
  readonly pinnedTracksTop: number;
2096
2035
  } & {
2097
- scaleBarDisplayPrefix(): string | undefined;
2036
+ scalebarDisplayPrefix(): string | undefined;
2098
2037
  MiniControlsComponent(): React.FC<any>;
2099
2038
  HeaderComponent(): React.FC<any>;
2100
2039
  readonly assembliesNotFound: string | undefined;
@@ -2102,7 +2041,11 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2102
2041
  readonly assembliesInitialized: boolean;
2103
2042
  readonly initialized: boolean;
2104
2043
  readonly hasDisplayedRegions: boolean;
2105
- readonly scaleBarHeight: number;
2044
+ readonly loadingMessage: "Loading" | undefined;
2045
+ readonly hasSomethingToShow: boolean;
2046
+ readonly showLoading: boolean;
2047
+ readonly showImportForm: boolean;
2048
+ readonly scalebarHeight: number;
2106
2049
  readonly headerHeight: number;
2107
2050
  readonly trackHeights: number;
2108
2051
  readonly trackHeightsWithResizeHandles: number;
@@ -2118,12 +2061,12 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2118
2061
  searchScope(assemblyName: string): {
2119
2062
  assemblyName: string;
2120
2063
  includeAggregateIndexes: boolean;
2121
- tracks: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IAnyType> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>>;
2064
+ tracks: import("@jbrowse/mobx-state-tree").IMSTArray<import("@jbrowse/mobx-state-tree").IAnyType> & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>>;
2122
2065
  };
2066
+ readonly trackMap: Map<any, any>;
2123
2067
  getTrack(id: string): any;
2124
2068
  rankSearchResults(results: import("@jbrowse/core/TextSearch/BaseResults").default[]): import("@jbrowse/core/TextSearch/BaseResults").default[];
2125
- rewriteOnClicks(trackType: string, viewMenuActions: import("@jbrowse/core/ui").MenuItem[]): void;
2126
- readonly trackTypeActions: Map<string, import("@jbrowse/core/ui").MenuItem[]>;
2069
+ readonly trackTypeActions: Map<string, MenuItem[]>;
2127
2070
  } & {
2128
2071
  setShowTrackOutlines(arg: boolean): void;
2129
2072
  setColorByCDS(flag: boolean): void;
@@ -2134,52 +2077,44 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2134
2077
  setHideHeaderOverview(b: boolean): void;
2135
2078
  setHideNoTracksActive(b: boolean): void;
2136
2079
  setShowGridlines(b: boolean): void;
2137
- addToHighlights(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType): void;
2138
- setHighlight(highlight?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType[]): void;
2139
- removeHighlight(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType): void;
2080
+ addToHighlights(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType): void;
2081
+ setHighlight(highlight?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType[]): void;
2082
+ removeHighlight(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType): void;
2140
2083
  scrollTo(offsetPx: number): number;
2141
2084
  zoomTo(bpPerPx: number, offset?: number, centerAtOffset?: boolean): number;
2142
- setOffsets(left?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset, right?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset): void;
2085
+ setOffsets(left?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset, right?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): void;
2143
2086
  setSearchResults(searchResults: import("@jbrowse/core/TextSearch/BaseResults").default[], searchQuery: string, assemblyName?: string): void;
2144
2087
  setNewView(bpPerPx: number, offsetPx: number): void;
2145
2088
  horizontallyFlip(): void;
2146
2089
  showTrack(trackId: string, initialSnapshot?: {}, displayInitialSnapshot?: {}): any;
2147
- hideTrack(trackId: string): number;
2090
+ hideTrack(trackId: string): 0 | 1;
2148
2091
  } & {
2149
2092
  moveTrackDown(id: string): void;
2150
2093
  moveTrackUp(id: string): void;
2151
2094
  moveTrackToTop(id: string): void;
2152
2095
  moveTrackToBottom(id: string): void;
2153
2096
  moveTrack(movingId: string, targetId: string): void;
2154
- toggleTrack(trackId: string): boolean;
2097
+ toggleTrack(trackId: string): void;
2155
2098
  setTrackLabels(setting: "overlapping" | "offset" | "hidden"): void;
2156
2099
  setShowCenterLine(b: boolean): void;
2157
- setDisplayedRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
2158
- activateTrackSelector(): import("@jbrowse/core/util/types").Widget;
2159
- getSelectedRegions(leftOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset, rightOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset): {
2100
+ setDisplayedRegions(regions: import("@jbrowse/core/util").Region[]): void;
2101
+ activateTrackSelector(): import("@jbrowse/core/util").Widget;
2102
+ getSelectedRegions(leftOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset, rightOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): {
2103
+ assemblyName: string;
2104
+ refName: string;
2160
2105
  start: number;
2161
2106
  end: number;
2162
- type: string;
2163
- regionNumber?: number;
2164
- reversed?: boolean;
2165
- refName: string;
2166
- assemblyName: string;
2167
- key: string;
2168
- offsetPx: number;
2169
- widthPx: number;
2170
- variant?: string;
2171
- isLeftEndOfDisplayedRegion?: boolean;
2172
2107
  }[];
2173
- afterDisplayedRegionsSet(cb: () => void): void;
2174
2108
  horizontalScroll(distance: number): number;
2175
2109
  center(): void;
2176
2110
  showAllRegions(): void;
2177
2111
  showAllRegionsInAssembly(assemblyName?: string): void;
2178
2112
  setDraggingTrackId(idx?: string): void;
2113
+ setLastTrackDragY(y: number): void;
2179
2114
  setScaleFactor(factor: number): void;
2180
2115
  clearView(): void;
2181
- setInit(arg?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState): void;
2182
- exportSvg(opts?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").ExportSvgOptions): Promise<void>;
2116
+ setInit(arg?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState): void;
2117
+ exportSvg(opts?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").ExportSvgOptions): Promise<void>;
2183
2118
  } & {
2184
2119
  slide: (viewWidths: number) => void;
2185
2120
  } & {
@@ -2190,17 +2125,18 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2190
2125
  readonly anyCytobandsExist: boolean;
2191
2126
  readonly cytobandOffset: number;
2192
2127
  } & {
2193
- menuItems(): import("@jbrowse/core/ui").MenuItem[];
2128
+ menuItems(): MenuItem[];
2194
2129
  } & {
2195
2130
  readonly staticBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
2196
2131
  readonly dynamicBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
2197
2132
  readonly roundedDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
2198
2133
  readonly visibleLocStrings: string;
2199
2134
  readonly coarseVisibleLocStrings: string;
2135
+ readonly coarseTotalBpDisplayStr: string;
2200
2136
  } & {
2201
2137
  setCoarseDynamicBlocks(blocks: import("@jbrowse/core/util/blockTypes").BlockSet): void;
2202
2138
  } & {
2203
- moveTo(start?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset, end?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset): void;
2139
+ moveTo(start?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset, end?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): void;
2204
2140
  navToLocString(input: string, optAssemblyName?: string, grow?: number): Promise<void>;
2205
2141
  navToSearchString({ input, assembly, }: {
2206
2142
  input: string;
@@ -2208,10 +2144,10 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2208
2144
  }): Promise<void>;
2209
2145
  navToLocation(parsedLocString: import("@jbrowse/core/util").ParsedLocString, assemblyName?: string, grow?: number): Promise<void>;
2210
2146
  navToLocations(regions: import("@jbrowse/core/util").ParsedLocString[], assemblyName?: string, grow?: number): Promise<void>;
2211
- navTo(query: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").NavLocation): void;
2212
- navToMultiple(locations: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").NavLocation[]): void;
2147
+ navTo(query: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").NavLocation): void;
2148
+ navToMultiple(locations: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").NavLocation[]): void;
2213
2149
  } & {
2214
- rubberBandMenuItems(): import("@jbrowse/core/ui").MenuItem[];
2150
+ rubberBandMenuItems(): MenuItem[];
2215
2151
  bpToPx({ refName, coord, regionNumber, }: {
2216
2152
  refName: string;
2217
2153
  coord: number;
@@ -2243,53 +2179,59 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2243
2179
  end: number;
2244
2180
  reversed?: boolean;
2245
2181
  } | undefined;
2182
+ readonly visibleRegions: import("@jbrowse/core/util/blockTypes").BaseBlock[];
2183
+ } & {
2184
+ rubberbandClickMenuItems(clickOffset: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): MenuItem[];
2246
2185
  } & {
2247
2186
  afterCreate(): void;
2248
2187
  afterAttach(): void;
2249
- }, import("mobx-state-tree").ModelCreationType<import("mobx-state-tree/dist/internal").ExtractCFromProps<{
2250
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
2251
- displayName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
2252
- minimized: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2253
- } & {
2254
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
2255
- type: import("mobx-state-tree").IType<string | undefined, string, string>;
2256
- offsetPx: import("mobx-state-tree").IType<number | undefined, number, number>;
2257
- bpPerPx: import("mobx-state-tree").IType<number | undefined, number, number>;
2258
- displayedRegions: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IType<import("@jbrowse/core/util/types").Region[], import("@jbrowse/core/util/types").Region[], import("@jbrowse/core/util/types").Region[]>, [undefined]>;
2259
- tracks: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>;
2260
- hideHeader: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2261
- hideHeaderOverview: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2262
- hideNoTracksActive: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2263
- trackSelectorType: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
2264
- showCenterLine: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2265
- showCytobandsSetting: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2266
- trackLabels: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
2267
- showGridlines: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2268
- highlight: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType>>, [undefined]>;
2269
- colorByCDS: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2270
- showTrackOutlines: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2271
- init: import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined>;
2272
- }>>, {
2273
- type: string;
2274
- id: string;
2275
- displayName: string | undefined;
2276
- tracks: any[];
2277
- minimized: boolean;
2278
- offsetPx: number;
2279
- bpPerPx: number;
2280
- displayedRegions: import("@jbrowse/core/util/types").Region[];
2281
- hideHeader: boolean;
2282
- hideHeaderOverview: boolean;
2283
- hideNoTracksActive: boolean;
2284
- trackSelectorType: string;
2285
- showCenterLine: boolean;
2286
- showCytobandsSetting: boolean;
2287
- trackLabels: string;
2288
- showGridlines: boolean;
2289
- highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType[];
2290
- colorByCDS: boolean;
2291
- showTrackOutlines: boolean;
2292
- }>>)[];
2188
+ }, import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
2189
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
2190
+ displayName: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
2191
+ minimized: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2192
+ } & {
2193
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
2194
+ type: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
2195
+ offsetPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
2196
+ bpPerPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
2197
+ displayedRegions: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[]>, [undefined]>;
2198
+ tracks: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
2199
+ hideHeader: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2200
+ hideHeaderOverview: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2201
+ hideNoTracksActive: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2202
+ trackSelectorType: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
2203
+ showCenterLine: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2204
+ showCytobandsSetting: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2205
+ trackLabels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
2206
+ showGridlines: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2207
+ highlight: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType>>, [undefined]>;
2208
+ colorByCDS: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2209
+ showTrackOutlines: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2210
+ init: import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined>;
2211
+ }>>, import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
2212
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
2213
+ displayName: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
2214
+ minimized: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2215
+ } & {
2216
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
2217
+ type: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
2218
+ offsetPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
2219
+ bpPerPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
2220
+ displayedRegions: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[]>, [undefined]>;
2221
+ tracks: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
2222
+ hideHeader: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2223
+ hideHeaderOverview: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2224
+ hideNoTracksActive: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2225
+ trackSelectorType: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
2226
+ showCenterLine: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2227
+ showCytobandsSetting: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2228
+ trackLabels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
2229
+ showGridlines: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2230
+ highlight: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType>>, [undefined]>;
2231
+ colorByCDS: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2232
+ showTrackOutlines: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2233
+ init: import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined>;
2234
+ }>>>)[];
2293
2235
  renderProps(): {
2294
2236
  theme: any;
2295
2237
  highResolutionScaling: any;
@@ -2302,8 +2244,8 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2302
2244
  type: string;
2303
2245
  offsetPx: number;
2304
2246
  bpPerPx: number;
2305
- displayedRegions: import("@jbrowse/core/util/types").Region[] & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IType<import("@jbrowse/core/util/types").Region[], import("@jbrowse/core/util/types").Region[], import("@jbrowse/core/util/types").Region[]>, [undefined]>>;
2306
- tracks: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IAnyType> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>>;
2247
+ displayedRegions: import("@jbrowse/core/util").Region[] & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[]>, [undefined]>>;
2248
+ tracks: import("@jbrowse/mobx-state-tree").IMSTArray<import("@jbrowse/mobx-state-tree").IAnyType> & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>>;
2307
2249
  hideHeader: boolean;
2308
2250
  hideHeaderOverview: boolean;
2309
2251
  hideNoTracksActive: boolean;
@@ -2312,14 +2254,14 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2312
2254
  showCytobandsSetting: boolean;
2313
2255
  trackLabels: string;
2314
2256
  showGridlines: boolean;
2315
- highlight: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType>> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType>>, [undefined]>>;
2257
+ highlight: import("@jbrowse/mobx-state-tree").IMSTArray<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType>> & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType>>, [undefined]>>;
2316
2258
  colorByCDS: boolean;
2317
2259
  showTrackOutlines: boolean;
2318
- init: (import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined>>) | undefined;
2319
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
2260
+ init: (import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined>>) | undefined;
2261
+ } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & {
2320
2262
  width: number;
2321
2263
  } & {
2322
- menuItems(): import("@jbrowse/core/ui").MenuItem[];
2264
+ menuItems(): MenuItem[];
2323
2265
  } & {
2324
2266
  setDisplayName(name: string): void;
2325
2267
  setWidth(newWidth: number): void;
@@ -2328,14 +2270,14 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2328
2270
  volatileWidth: number | undefined;
2329
2271
  minimumBlockWidth: number;
2330
2272
  draggingTrackId: undefined | string;
2273
+ lastTrackDragY: undefined | number;
2331
2274
  volatileError: unknown;
2332
- afterDisplayedRegionsSetCallbacks: (() => void)[];
2333
2275
  scaleFactor: number;
2334
2276
  trackRefs: Record<string, HTMLDivElement>;
2335
2277
  coarseDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
2336
2278
  coarseTotalBp: number;
2337
- leftOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset;
2338
- rightOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset;
2279
+ leftOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset;
2280
+ rightOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset;
2339
2281
  } & {
2340
2282
  readonly pinnedTracks: any[];
2341
2283
  readonly unpinnedTracks: any[];
@@ -2349,7 +2291,7 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2349
2291
  readonly rubberbandTop: number;
2350
2292
  readonly pinnedTracksTop: number;
2351
2293
  } & {
2352
- scaleBarDisplayPrefix(): string | undefined;
2294
+ scalebarDisplayPrefix(): string | undefined;
2353
2295
  MiniControlsComponent(): React.FC<any>;
2354
2296
  HeaderComponent(): React.FC<any>;
2355
2297
  readonly assembliesNotFound: string | undefined;
@@ -2357,7 +2299,11 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2357
2299
  readonly assembliesInitialized: boolean;
2358
2300
  readonly initialized: boolean;
2359
2301
  readonly hasDisplayedRegions: boolean;
2360
- readonly scaleBarHeight: number;
2302
+ readonly loadingMessage: "Loading" | undefined;
2303
+ readonly hasSomethingToShow: boolean;
2304
+ readonly showLoading: boolean;
2305
+ readonly showImportForm: boolean;
2306
+ readonly scalebarHeight: number;
2361
2307
  readonly headerHeight: number;
2362
2308
  readonly trackHeights: number;
2363
2309
  readonly trackHeightsWithResizeHandles: number;
@@ -2373,12 +2319,12 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2373
2319
  searchScope(assemblyName: string): {
2374
2320
  assemblyName: string;
2375
2321
  includeAggregateIndexes: boolean;
2376
- tracks: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IAnyType> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>>;
2322
+ tracks: import("@jbrowse/mobx-state-tree").IMSTArray<import("@jbrowse/mobx-state-tree").IAnyType> & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>>;
2377
2323
  };
2324
+ readonly trackMap: Map<any, any>;
2378
2325
  getTrack(id: string): any;
2379
2326
  rankSearchResults(results: import("@jbrowse/core/TextSearch/BaseResults").default[]): import("@jbrowse/core/TextSearch/BaseResults").default[];
2380
- rewriteOnClicks(trackType: string, viewMenuActions: import("@jbrowse/core/ui").MenuItem[]): void;
2381
- readonly trackTypeActions: Map<string, import("@jbrowse/core/ui").MenuItem[]>;
2327
+ readonly trackTypeActions: Map<string, MenuItem[]>;
2382
2328
  } & {
2383
2329
  setShowTrackOutlines(arg: boolean): void;
2384
2330
  setColorByCDS(flag: boolean): void;
@@ -2389,52 +2335,44 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2389
2335
  setHideHeaderOverview(b: boolean): void;
2390
2336
  setHideNoTracksActive(b: boolean): void;
2391
2337
  setShowGridlines(b: boolean): void;
2392
- addToHighlights(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType): void;
2393
- setHighlight(highlight?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType[]): void;
2394
- removeHighlight(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType): void;
2338
+ addToHighlights(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType): void;
2339
+ setHighlight(highlight?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType[]): void;
2340
+ removeHighlight(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType): void;
2395
2341
  scrollTo(offsetPx: number): number;
2396
2342
  zoomTo(bpPerPx: number, offset?: number, centerAtOffset?: boolean): number;
2397
- setOffsets(left?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset, right?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset): void;
2343
+ setOffsets(left?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset, right?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): void;
2398
2344
  setSearchResults(searchResults: import("@jbrowse/core/TextSearch/BaseResults").default[], searchQuery: string, assemblyName?: string): void;
2399
2345
  setNewView(bpPerPx: number, offsetPx: number): void;
2400
2346
  horizontallyFlip(): void;
2401
2347
  showTrack(trackId: string, initialSnapshot?: {}, displayInitialSnapshot?: {}): any;
2402
- hideTrack(trackId: string): number;
2348
+ hideTrack(trackId: string): 0 | 1;
2403
2349
  } & {
2404
2350
  moveTrackDown(id: string): void;
2405
2351
  moveTrackUp(id: string): void;
2406
2352
  moveTrackToTop(id: string): void;
2407
2353
  moveTrackToBottom(id: string): void;
2408
2354
  moveTrack(movingId: string, targetId: string): void;
2409
- toggleTrack(trackId: string): boolean;
2355
+ toggleTrack(trackId: string): void;
2410
2356
  setTrackLabels(setting: "overlapping" | "offset" | "hidden"): void;
2411
2357
  setShowCenterLine(b: boolean): void;
2412
- setDisplayedRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
2413
- activateTrackSelector(): import("@jbrowse/core/util/types").Widget;
2414
- getSelectedRegions(leftOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset, rightOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset): {
2358
+ setDisplayedRegions(regions: import("@jbrowse/core/util").Region[]): void;
2359
+ activateTrackSelector(): import("@jbrowse/core/util").Widget;
2360
+ getSelectedRegions(leftOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset, rightOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): {
2361
+ assemblyName: string;
2362
+ refName: string;
2415
2363
  start: number;
2416
2364
  end: number;
2417
- type: string;
2418
- regionNumber?: number;
2419
- reversed?: boolean;
2420
- refName: string;
2421
- assemblyName: string;
2422
- key: string;
2423
- offsetPx: number;
2424
- widthPx: number;
2425
- variant?: string;
2426
- isLeftEndOfDisplayedRegion?: boolean;
2427
2365
  }[];
2428
- afterDisplayedRegionsSet(cb: () => void): void;
2429
2366
  horizontalScroll(distance: number): number;
2430
2367
  center(): void;
2431
2368
  showAllRegions(): void;
2432
2369
  showAllRegionsInAssembly(assemblyName?: string): void;
2433
2370
  setDraggingTrackId(idx?: string): void;
2371
+ setLastTrackDragY(y: number): void;
2434
2372
  setScaleFactor(factor: number): void;
2435
2373
  clearView(): void;
2436
- setInit(arg?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState): void;
2437
- exportSvg(opts?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").ExportSvgOptions): Promise<void>;
2374
+ setInit(arg?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState): void;
2375
+ exportSvg(opts?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").ExportSvgOptions): Promise<void>;
2438
2376
  } & {
2439
2377
  slide: (viewWidths: number) => void;
2440
2378
  } & {
@@ -2445,17 +2383,18 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2445
2383
  readonly anyCytobandsExist: boolean;
2446
2384
  readonly cytobandOffset: number;
2447
2385
  } & {
2448
- menuItems(): import("@jbrowse/core/ui").MenuItem[];
2386
+ menuItems(): MenuItem[];
2449
2387
  } & {
2450
2388
  readonly staticBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
2451
2389
  readonly dynamicBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
2452
2390
  readonly roundedDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
2453
2391
  readonly visibleLocStrings: string;
2454
2392
  readonly coarseVisibleLocStrings: string;
2393
+ readonly coarseTotalBpDisplayStr: string;
2455
2394
  } & {
2456
2395
  setCoarseDynamicBlocks(blocks: import("@jbrowse/core/util/blockTypes").BlockSet): void;
2457
2396
  } & {
2458
- moveTo(start?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset, end?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset): void;
2397
+ moveTo(start?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset, end?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): void;
2459
2398
  navToLocString(input: string, optAssemblyName?: string, grow?: number): Promise<void>;
2460
2399
  navToSearchString({ input, assembly, }: {
2461
2400
  input: string;
@@ -2463,10 +2402,10 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2463
2402
  }): Promise<void>;
2464
2403
  navToLocation(parsedLocString: import("@jbrowse/core/util").ParsedLocString, assemblyName?: string, grow?: number): Promise<void>;
2465
2404
  navToLocations(regions: import("@jbrowse/core/util").ParsedLocString[], assemblyName?: string, grow?: number): Promise<void>;
2466
- navTo(query: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").NavLocation): void;
2467
- navToMultiple(locations: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").NavLocation[]): void;
2405
+ navTo(query: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").NavLocation): void;
2406
+ navToMultiple(locations: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").NavLocation[]): void;
2468
2407
  } & {
2469
- rubberBandMenuItems(): import("@jbrowse/core/ui").MenuItem[];
2408
+ rubberBandMenuItems(): MenuItem[];
2470
2409
  bpToPx({ refName, coord, regionNumber, }: {
2471
2410
  refName: string;
2472
2411
  coord: number;
@@ -2498,36 +2437,39 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2498
2437
  end: number;
2499
2438
  reversed?: boolean;
2500
2439
  } | undefined;
2440
+ readonly visibleRegions: import("@jbrowse/core/util/blockTypes").BaseBlock[];
2441
+ } & {
2442
+ rubberbandClickMenuItems(clickOffset: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): MenuItem[];
2501
2443
  } & {
2502
2444
  afterCreate(): void;
2503
2445
  afterAttach(): void;
2504
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
2505
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
2506
- displayName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
2507
- minimized: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2508
- } & {
2509
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
2510
- type: import("mobx-state-tree").IType<string | undefined, string, string>;
2511
- offsetPx: import("mobx-state-tree").IType<number | undefined, number, number>;
2512
- bpPerPx: import("mobx-state-tree").IType<number | undefined, number, number>;
2513
- displayedRegions: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IType<import("@jbrowse/core/util/types").Region[], import("@jbrowse/core/util/types").Region[], import("@jbrowse/core/util/types").Region[]>, [undefined]>;
2514
- tracks: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>;
2515
- hideHeader: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2516
- hideHeaderOverview: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2517
- hideNoTracksActive: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2518
- trackSelectorType: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
2519
- showCenterLine: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2520
- showCytobandsSetting: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2521
- trackLabels: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
2522
- showGridlines: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2523
- highlight: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType>>, [undefined]>;
2524
- colorByCDS: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2525
- showTrackOutlines: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2526
- init: import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined>;
2446
+ } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
2447
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
2448
+ displayName: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
2449
+ minimized: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2450
+ } & {
2451
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
2452
+ type: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
2453
+ offsetPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
2454
+ bpPerPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
2455
+ displayedRegions: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[]>, [undefined]>;
2456
+ tracks: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
2457
+ hideHeader: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2458
+ hideHeaderOverview: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2459
+ hideNoTracksActive: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2460
+ trackSelectorType: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
2461
+ showCenterLine: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2462
+ showCytobandsSetting: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2463
+ trackLabels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
2464
+ showGridlines: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2465
+ highlight: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType>>, [undefined]>;
2466
+ colorByCDS: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2467
+ showTrackOutlines: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2468
+ init: import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined>;
2527
2469
  }, {
2528
2470
  width: number;
2529
2471
  } & {
2530
- menuItems(): import("@jbrowse/core/ui").MenuItem[];
2472
+ menuItems(): MenuItem[];
2531
2473
  } & {
2532
2474
  setDisplayName(name: string): void;
2533
2475
  setWidth(newWidth: number): void;
@@ -2536,14 +2478,14 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2536
2478
  volatileWidth: number | undefined;
2537
2479
  minimumBlockWidth: number;
2538
2480
  draggingTrackId: undefined | string;
2481
+ lastTrackDragY: undefined | number;
2539
2482
  volatileError: unknown;
2540
- afterDisplayedRegionsSetCallbacks: (() => void)[];
2541
2483
  scaleFactor: number;
2542
2484
  trackRefs: Record<string, HTMLDivElement>;
2543
2485
  coarseDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
2544
2486
  coarseTotalBp: number;
2545
- leftOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset;
2546
- rightOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset;
2487
+ leftOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset;
2488
+ rightOffset: undefined | import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset;
2547
2489
  } & {
2548
2490
  readonly pinnedTracks: any[];
2549
2491
  readonly unpinnedTracks: any[];
@@ -2557,7 +2499,7 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2557
2499
  readonly rubberbandTop: number;
2558
2500
  readonly pinnedTracksTop: number;
2559
2501
  } & {
2560
- scaleBarDisplayPrefix(): string | undefined;
2502
+ scalebarDisplayPrefix(): string | undefined;
2561
2503
  MiniControlsComponent(): React.FC<any>;
2562
2504
  HeaderComponent(): React.FC<any>;
2563
2505
  readonly assembliesNotFound: string | undefined;
@@ -2565,7 +2507,11 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2565
2507
  readonly assembliesInitialized: boolean;
2566
2508
  readonly initialized: boolean;
2567
2509
  readonly hasDisplayedRegions: boolean;
2568
- readonly scaleBarHeight: number;
2510
+ readonly loadingMessage: "Loading" | undefined;
2511
+ readonly hasSomethingToShow: boolean;
2512
+ readonly showLoading: boolean;
2513
+ readonly showImportForm: boolean;
2514
+ readonly scalebarHeight: number;
2569
2515
  readonly headerHeight: number;
2570
2516
  readonly trackHeights: number;
2571
2517
  readonly trackHeightsWithResizeHandles: number;
@@ -2581,12 +2527,12 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2581
2527
  searchScope(assemblyName: string): {
2582
2528
  assemblyName: string;
2583
2529
  includeAggregateIndexes: boolean;
2584
- tracks: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IAnyType> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>>;
2530
+ tracks: import("@jbrowse/mobx-state-tree").IMSTArray<import("@jbrowse/mobx-state-tree").IAnyType> & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>>;
2585
2531
  };
2532
+ readonly trackMap: Map<any, any>;
2586
2533
  getTrack(id: string): any;
2587
2534
  rankSearchResults(results: import("@jbrowse/core/TextSearch/BaseResults").default[]): import("@jbrowse/core/TextSearch/BaseResults").default[];
2588
- rewriteOnClicks(trackType: string, viewMenuActions: import("@jbrowse/core/ui").MenuItem[]): void;
2589
- readonly trackTypeActions: Map<string, import("@jbrowse/core/ui").MenuItem[]>;
2535
+ readonly trackTypeActions: Map<string, MenuItem[]>;
2590
2536
  } & {
2591
2537
  setShowTrackOutlines(arg: boolean): void;
2592
2538
  setColorByCDS(flag: boolean): void;
@@ -2597,52 +2543,44 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2597
2543
  setHideHeaderOverview(b: boolean): void;
2598
2544
  setHideNoTracksActive(b: boolean): void;
2599
2545
  setShowGridlines(b: boolean): void;
2600
- addToHighlights(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType): void;
2601
- setHighlight(highlight?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType[]): void;
2602
- removeHighlight(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType): void;
2546
+ addToHighlights(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType): void;
2547
+ setHighlight(highlight?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType[]): void;
2548
+ removeHighlight(highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType): void;
2603
2549
  scrollTo(offsetPx: number): number;
2604
2550
  zoomTo(bpPerPx: number, offset?: number, centerAtOffset?: boolean): number;
2605
- setOffsets(left?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset, right?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset): void;
2551
+ setOffsets(left?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset, right?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): void;
2606
2552
  setSearchResults(searchResults: import("@jbrowse/core/TextSearch/BaseResults").default[], searchQuery: string, assemblyName?: string): void;
2607
2553
  setNewView(bpPerPx: number, offsetPx: number): void;
2608
2554
  horizontallyFlip(): void;
2609
2555
  showTrack(trackId: string, initialSnapshot?: {}, displayInitialSnapshot?: {}): any;
2610
- hideTrack(trackId: string): number;
2556
+ hideTrack(trackId: string): 0 | 1;
2611
2557
  } & {
2612
2558
  moveTrackDown(id: string): void;
2613
2559
  moveTrackUp(id: string): void;
2614
2560
  moveTrackToTop(id: string): void;
2615
2561
  moveTrackToBottom(id: string): void;
2616
2562
  moveTrack(movingId: string, targetId: string): void;
2617
- toggleTrack(trackId: string): boolean;
2563
+ toggleTrack(trackId: string): void;
2618
2564
  setTrackLabels(setting: "overlapping" | "offset" | "hidden"): void;
2619
2565
  setShowCenterLine(b: boolean): void;
2620
- setDisplayedRegions(regions: import("@jbrowse/core/util/types").Region[]): void;
2621
- activateTrackSelector(): import("@jbrowse/core/util/types").Widget;
2622
- getSelectedRegions(leftOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset, rightOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset): {
2566
+ setDisplayedRegions(regions: import("@jbrowse/core/util").Region[]): void;
2567
+ activateTrackSelector(): import("@jbrowse/core/util").Widget;
2568
+ getSelectedRegions(leftOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset, rightOffset?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): {
2569
+ assemblyName: string;
2570
+ refName: string;
2623
2571
  start: number;
2624
2572
  end: number;
2625
- type: string;
2626
- regionNumber?: number;
2627
- reversed?: boolean;
2628
- refName: string;
2629
- assemblyName: string;
2630
- key: string;
2631
- offsetPx: number;
2632
- widthPx: number;
2633
- variant?: string;
2634
- isLeftEndOfDisplayedRegion?: boolean;
2635
2573
  }[];
2636
- afterDisplayedRegionsSet(cb: () => void): void;
2637
2574
  horizontalScroll(distance: number): number;
2638
2575
  center(): void;
2639
2576
  showAllRegions(): void;
2640
2577
  showAllRegionsInAssembly(assemblyName?: string): void;
2641
2578
  setDraggingTrackId(idx?: string): void;
2579
+ setLastTrackDragY(y: number): void;
2642
2580
  setScaleFactor(factor: number): void;
2643
2581
  clearView(): void;
2644
- setInit(arg?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState): void;
2645
- exportSvg(opts?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").ExportSvgOptions): Promise<void>;
2582
+ setInit(arg?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState): void;
2583
+ exportSvg(opts?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").ExportSvgOptions): Promise<void>;
2646
2584
  } & {
2647
2585
  slide: (viewWidths: number) => void;
2648
2586
  } & {
@@ -2653,17 +2591,18 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2653
2591
  readonly anyCytobandsExist: boolean;
2654
2592
  readonly cytobandOffset: number;
2655
2593
  } & {
2656
- menuItems(): import("@jbrowse/core/ui").MenuItem[];
2594
+ menuItems(): MenuItem[];
2657
2595
  } & {
2658
2596
  readonly staticBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
2659
2597
  readonly dynamicBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
2660
2598
  readonly roundedDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
2661
2599
  readonly visibleLocStrings: string;
2662
2600
  readonly coarseVisibleLocStrings: string;
2601
+ readonly coarseTotalBpDisplayStr: string;
2663
2602
  } & {
2664
2603
  setCoarseDynamicBlocks(blocks: import("@jbrowse/core/util/blockTypes").BlockSet): void;
2665
2604
  } & {
2666
- moveTo(start?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset, end?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").BpOffset): void;
2605
+ moveTo(start?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset, end?: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): void;
2667
2606
  navToLocString(input: string, optAssemblyName?: string, grow?: number): Promise<void>;
2668
2607
  navToSearchString({ input, assembly, }: {
2669
2608
  input: string;
@@ -2671,10 +2610,10 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2671
2610
  }): Promise<void>;
2672
2611
  navToLocation(parsedLocString: import("@jbrowse/core/util").ParsedLocString, assemblyName?: string, grow?: number): Promise<void>;
2673
2612
  navToLocations(regions: import("@jbrowse/core/util").ParsedLocString[], assemblyName?: string, grow?: number): Promise<void>;
2674
- navTo(query: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").NavLocation): void;
2675
- navToMultiple(locations: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").NavLocation[]): void;
2613
+ navTo(query: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").NavLocation): void;
2614
+ navToMultiple(locations: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").NavLocation[]): void;
2676
2615
  } & {
2677
- rubberBandMenuItems(): import("@jbrowse/core/ui").MenuItem[];
2616
+ rubberBandMenuItems(): MenuItem[];
2678
2617
  bpToPx({ refName, coord, regionNumber, }: {
2679
2618
  refName: string;
2680
2619
  coord: number;
@@ -2706,62 +2645,79 @@ export default function sessionModelFactory(pluginManager: PluginManager): impor
2706
2645
  end: number;
2707
2646
  reversed?: boolean;
2708
2647
  } | undefined;
2648
+ readonly visibleRegions: import("@jbrowse/core/util/blockTypes").BaseBlock[];
2649
+ } & {
2650
+ rubberbandClickMenuItems(clickOffset: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").BpOffset): MenuItem[];
2709
2651
  } & {
2710
2652
  afterCreate(): void;
2711
2653
  afterAttach(): void;
2712
- }, import("mobx-state-tree").ModelCreationType<import("mobx-state-tree/dist/internal").ExtractCFromProps<{
2713
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
2714
- displayName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
2715
- minimized: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2716
- } & {
2717
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
2718
- type: import("mobx-state-tree").IType<string | undefined, string, string>;
2719
- offsetPx: import("mobx-state-tree").IType<number | undefined, number, number>;
2720
- bpPerPx: import("mobx-state-tree").IType<number | undefined, number, number>;
2721
- displayedRegions: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IType<import("@jbrowse/core/util/types").Region[], import("@jbrowse/core/util/types").Region[], import("@jbrowse/core/util/types").Region[]>, [undefined]>;
2722
- tracks: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>;
2723
- hideHeader: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2724
- hideHeaderOverview: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2725
- hideNoTracksActive: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2726
- trackSelectorType: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
2727
- showCenterLine: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2728
- showCytobandsSetting: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2729
- trackLabels: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
2730
- showGridlines: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2731
- highlight: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType>>, [undefined]>;
2732
- colorByCDS: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2733
- showTrackOutlines: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2734
- init: import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").InitState | undefined>;
2735
- }>>, {
2736
- type: string;
2737
- id: string;
2738
- displayName: string | undefined;
2739
- tracks: any[];
2740
- minimized: boolean;
2741
- offsetPx: number;
2742
- bpPerPx: number;
2743
- displayedRegions: import("@jbrowse/core/util/types").Region[];
2744
- hideHeader: boolean;
2745
- hideHeaderOverview: boolean;
2746
- hideNoTracksActive: boolean;
2747
- trackSelectorType: string;
2748
- showCenterLine: boolean;
2749
- showCytobandsSetting: boolean;
2750
- trackLabels: string;
2751
- showGridlines: boolean;
2752
- highlight: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types").HighlightType[];
2753
- colorByCDS: boolean;
2754
- showTrackOutlines: boolean;
2755
- }>>;
2654
+ }, import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
2655
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
2656
+ displayName: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
2657
+ minimized: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2658
+ } & {
2659
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
2660
+ type: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
2661
+ offsetPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
2662
+ bpPerPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
2663
+ displayedRegions: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[]>, [undefined]>;
2664
+ tracks: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
2665
+ hideHeader: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2666
+ hideHeaderOverview: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2667
+ hideNoTracksActive: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2668
+ trackSelectorType: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
2669
+ showCenterLine: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2670
+ showCytobandsSetting: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2671
+ trackLabels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
2672
+ showGridlines: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2673
+ highlight: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType>>, [undefined]>;
2674
+ colorByCDS: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2675
+ showTrackOutlines: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2676
+ init: import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined>;
2677
+ }>>, import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
2678
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
2679
+ displayName: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
2680
+ minimized: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2681
+ } & {
2682
+ id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
2683
+ type: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
2684
+ offsetPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
2685
+ bpPerPx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
2686
+ displayedRegions: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[]>, [undefined]>;
2687
+ tracks: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
2688
+ hideHeader: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2689
+ hideHeaderOverview: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2690
+ hideNoTracksActive: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2691
+ trackSelectorType: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
2692
+ showCenterLine: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2693
+ showCytobandsSetting: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2694
+ trackLabels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
2695
+ showGridlines: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
2696
+ highlight: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").HighlightType>>, [undefined]>;
2697
+ colorByCDS: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2698
+ showTrackOutlines: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
2699
+ init: import("@jbrowse/mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined, import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView/types.ts").InitState | undefined>;
2700
+ }>>>;
2756
2701
  removeView(): void;
2757
2702
  } & {
2758
- getTrackActionMenuItems(config: any): {
2759
- label: string;
2760
- onClick: () => void;
2761
- icon: import("@mui/material/OverridableComponent").OverridableComponent<import("@mui/material").SvgIconTypeMap<{}, "svg">> & {
2762
- muiName: string;
2763
- };
2764
- }[];
2765
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
2703
+ getTrackActionMenuItems(config: any, extraTrackActions?: MenuItem[]): MenuItem[];
2704
+ }, import("@jbrowse/mobx-state-tree")._NotCustomized, {
2705
+ id: string;
2706
+ name: string;
2707
+ margin: number;
2708
+ } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & {
2709
+ drawerPosition: string;
2710
+ drawerWidth: number;
2711
+ widgets: import("mobx").IKeyValueMap<any>;
2712
+ activeWidgets: import("mobx").IKeyValueMap<import("@jbrowse/mobx-state-tree").ReferenceIdentifier | undefined>;
2713
+ minimized: boolean;
2714
+ } & {
2715
+ connectionInstances: any[];
2716
+ } & {
2717
+ id: string;
2718
+ name: string;
2719
+ margin: number;
2720
+ sessionTracks: any[];
2721
+ } & import("@jbrowse/mobx-state-tree")._NotCustomized>;
2766
2722
  export type SessionStateModel = ReturnType<typeof sessionModelFactory>;
2767
2723
  export type SessionModel = Instance<SessionStateModel>;