@jbrowse/product-core 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 (97) hide show
  1. package/esm/RootModel/BaseRootModel.d.ts +53 -30
  2. package/esm/RootModel/BaseRootModel.js +1 -1
  3. package/esm/RootModel/FormatAbout.d.ts +2 -2
  4. package/esm/RootModel/FormatDetails.d.ts +2 -2
  5. package/esm/RootModel/HierarchicalConfig.d.ts +6 -6
  6. package/esm/RootModel/InternetAccounts.d.ts +4 -4
  7. package/esm/RootModel/InternetAccounts.js +3 -3
  8. package/esm/RootModel/index.d.ts +5 -5
  9. package/esm/RootModel/index.js +5 -5
  10. package/esm/Session/BaseSession.d.ts +12 -8
  11. package/esm/Session/BaseSession.js +12 -2
  12. package/esm/Session/Connections.d.ts +7 -144
  13. package/esm/Session/Connections.js +13 -3
  14. package/esm/Session/DialogQueue.d.ts +3 -3
  15. package/esm/Session/DialogQueue.js +4 -6
  16. package/esm/Session/DrawerWidgets.d.ts +17 -9
  17. package/esm/Session/DrawerWidgets.js +32 -8
  18. package/esm/Session/MultipleViews.d.ts +192 -105
  19. package/esm/Session/MultipleViews.js +27 -10
  20. package/esm/Session/ReferenceManagement.d.ts +3 -3
  21. package/esm/Session/ReferenceManagement.js +10 -4
  22. package/esm/Session/SessionTracks.d.ts +181 -100
  23. package/esm/Session/SessionTracks.js +13 -3
  24. package/esm/Session/Themes.d.ts +3 -3
  25. package/esm/Session/Themes.js +3 -3
  26. package/esm/Session/Tracks.d.ts +178 -99
  27. package/esm/Session/Tracks.js +16 -3
  28. package/esm/Session/index.d.ts +10 -10
  29. package/esm/Session/index.js +10 -10
  30. package/esm/index.d.ts +4 -4
  31. package/esm/index.js +4 -4
  32. package/esm/rpcWorker.d.ts +6 -0
  33. package/esm/rpcWorker.js +12 -6
  34. package/esm/ui/AboutDialog.d.ts +4 -2
  35. package/esm/ui/AboutDialog.js +4 -5
  36. package/esm/ui/AboutDialogContents.d.ts +4 -2
  37. package/esm/ui/AboutDialogContents.js +13 -12
  38. package/esm/ui/FileInfoPanel.d.ts +4 -2
  39. package/esm/ui/FileInfoPanel.js +6 -7
  40. package/esm/ui/HeaderButtons.js +4 -4
  41. package/esm/ui/RefNameInfoDialog.d.ts +4 -2
  42. package/esm/ui/RefNameInfoDialog.js +13 -13
  43. package/esm/ui/index.d.ts +1 -1
  44. package/esm/ui/index.js +1 -1
  45. package/esm/ui/util.d.ts +5 -2
  46. package/esm/ui/util.js +23 -5
  47. package/package.json +24 -34
  48. package/dist/RootModel/BaseRootModel.d.ts +0 -526
  49. package/dist/RootModel/BaseRootModel.js +0 -57
  50. package/dist/RootModel/FormatAbout.d.ts +0 -12
  51. package/dist/RootModel/FormatAbout.js +0 -18
  52. package/dist/RootModel/FormatDetails.d.ts +0 -24
  53. package/dist/RootModel/FormatDetails.js +0 -30
  54. package/dist/RootModel/HierarchicalConfig.d.ts +0 -26
  55. package/dist/RootModel/HierarchicalConfig.js +0 -32
  56. package/dist/RootModel/InternetAccounts.d.ts +0 -15
  57. package/dist/RootModel/InternetAccounts.js +0 -79
  58. package/dist/RootModel/index.d.ts +0 -5
  59. package/dist/RootModel/index.js +0 -21
  60. package/dist/Session/BaseSession.d.ts +0 -31
  61. package/dist/Session/BaseSession.js +0 -63
  62. package/dist/Session/Connections.d.ts +0 -158
  63. package/dist/Session/Connections.js +0 -84
  64. package/dist/Session/DialogQueue.d.ts +0 -15
  65. package/dist/Session/DialogQueue.js +0 -37
  66. package/dist/Session/DrawerWidgets.d.ts +0 -28
  67. package/dist/Session/DrawerWidgets.js +0 -107
  68. package/dist/Session/MultipleViews.d.ts +0 -1656
  69. package/dist/Session/MultipleViews.js +0 -75
  70. package/dist/Session/ReferenceManagement.d.ts +0 -15
  71. package/dist/Session/ReferenceManagement.js +0 -71
  72. package/dist/Session/SessionTracks.d.ts +0 -1639
  73. package/dist/Session/SessionTracks.js +0 -54
  74. package/dist/Session/Themes.d.ts +0 -18
  75. package/dist/Session/Themes.js +0 -47
  76. package/dist/Session/Tracks.d.ts +0 -1632
  77. package/dist/Session/Tracks.js +0 -36
  78. package/dist/Session/index.d.ts +0 -10
  79. package/dist/Session/index.js +0 -26
  80. package/dist/index.d.ts +0 -4
  81. package/dist/index.js +0 -20
  82. package/dist/rpcWorker.d.ts +0 -6
  83. package/dist/rpcWorker.js +0 -57
  84. package/dist/ui/AboutDialog.d.ts +0 -5
  85. package/dist/ui/AboutDialog.js +0 -18
  86. package/dist/ui/AboutDialogContents.d.ts +0 -5
  87. package/dist/ui/AboutDialogContents.js +0 -41
  88. package/dist/ui/FileInfoPanel.d.ts +0 -4
  89. package/dist/ui/FileInfoPanel.js +0 -43
  90. package/dist/ui/HeaderButtons.d.ts +0 -6
  91. package/dist/ui/HeaderButtons.js +0 -31
  92. package/dist/ui/RefNameInfoDialog.d.ts +0 -6
  93. package/dist/ui/RefNameInfoDialog.js +0 -87
  94. package/dist/ui/index.d.ts +0 -1
  95. package/dist/ui/index.js +0 -17
  96. package/dist/ui/util.d.ts +0 -12
  97. package/dist/ui/util.js +0 -28
@@ -1,1656 +0,0 @@
1
- import type PluginManager from '@jbrowse/core/PluginManager';
2
- import type { IBaseViewModel } from '@jbrowse/core/pluggableElementTypes';
3
- import type { IAnyStateTreeNode, Instance } from 'mobx-state-tree';
4
- export declare function MultipleViewsSessionMixin(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>;
8
- } & {
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]>;
14
- } & {
15
- views: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>;
16
- stickyViewHeaders: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
17
- }, {
18
- selection: unknown;
19
- hovered: unknown;
20
- } & {
21
- readonly root: {
22
- jbrowse: any;
23
- session: any;
24
- sessionPath: string;
25
- assemblyManager: {
26
- assemblies: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IModelType<{
27
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
28
- }, {
29
- error: unknown;
30
- loadingP: Promise<void> | undefined;
31
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
32
- refNameAliases: {
33
- [x: string]: string;
34
- } | undefined;
35
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
36
- } & {
37
- getConf(arg: string): any;
38
- readonly lowerCaseRefNameAliases: {
39
- [k: string]: string;
40
- } | undefined;
41
- } & {
42
- readonly initialized: boolean;
43
- readonly name: string;
44
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
45
- readonly aliases: string[];
46
- readonly displayName: string;
47
- hasName(name: string): boolean;
48
- readonly allAliases: string[];
49
- readonly allRefNames: string[] | undefined;
50
- readonly lowerCaseRefNames: string[] | undefined;
51
- readonly allRefNamesWithLowerCase: string[] | undefined;
52
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
53
- readonly refNameColors: string[];
54
- } & {
55
- readonly refNames: string[] | undefined;
56
- } & {
57
- getCanonicalRefName(refName: string): string | undefined;
58
- getRefNameColor(refName: string): string | undefined;
59
- isValidRefName(refName: string): boolean;
60
- } & {
61
- setLoaded({ regions, refNameAliases, cytobands, }: {
62
- regions: import("@jbrowse/core/util").Region[];
63
- refNameAliases: {
64
- [x: string]: string;
65
- };
66
- cytobands: import("@jbrowse/core/util").Feature[];
67
- }): void;
68
- setError(e: unknown): void;
69
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
70
- setRefNameAliases(aliases: {
71
- [x: string]: string;
72
- }): void;
73
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
74
- setLoadingP(p?: Promise<void>): void;
75
- load(): Promise<void>;
76
- loadPre(): Promise<void>;
77
- } & {
78
- getAdapterMapEntry(adapterConf: {
79
- [x: string]: unknown;
80
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
81
- getRefNameMapForAdapter(adapterConf: {
82
- [x: string]: unknown;
83
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
84
- [x: string]: string;
85
- }>;
86
- getReverseRefNameMapForAdapter(adapterConf: {
87
- [x: string]: unknown;
88
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
89
- [x: string]: string;
90
- }>;
91
- afterCreate(): void;
92
- }, 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<{
93
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
94
- }, {
95
- error: unknown;
96
- loadingP: Promise<void> | undefined;
97
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
98
- refNameAliases: {
99
- [x: string]: string;
100
- } | undefined;
101
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
102
- } & {
103
- getConf(arg: string): any;
104
- readonly lowerCaseRefNameAliases: {
105
- [k: string]: string;
106
- } | undefined;
107
- } & {
108
- readonly initialized: boolean;
109
- readonly name: string;
110
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
111
- readonly aliases: string[];
112
- readonly displayName: string;
113
- hasName(name: string): boolean;
114
- readonly allAliases: string[];
115
- readonly allRefNames: string[] | undefined;
116
- readonly lowerCaseRefNames: string[] | undefined;
117
- readonly allRefNamesWithLowerCase: string[] | undefined;
118
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
119
- readonly refNameColors: string[];
120
- } & {
121
- readonly refNames: string[] | undefined;
122
- } & {
123
- getCanonicalRefName(refName: string): string | undefined;
124
- getRefNameColor(refName: string): string | undefined;
125
- isValidRefName(refName: string): boolean;
126
- } & {
127
- setLoaded({ regions, refNameAliases, cytobands, }: {
128
- regions: import("@jbrowse/core/util").Region[];
129
- refNameAliases: {
130
- [x: string]: string;
131
- };
132
- cytobands: import("@jbrowse/core/util").Feature[];
133
- }): void;
134
- setError(e: unknown): void;
135
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
136
- setRefNameAliases(aliases: {
137
- [x: string]: string;
138
- }): void;
139
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
140
- setLoadingP(p?: Promise<void>): void;
141
- load(): Promise<void>;
142
- loadPre(): Promise<void>;
143
- } & {
144
- getAdapterMapEntry(adapterConf: {
145
- [x: string]: unknown;
146
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
147
- getRefNameMapForAdapter(adapterConf: {
148
- [x: string]: unknown;
149
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
150
- [x: string]: string;
151
- }>;
152
- getReverseRefNameMapForAdapter(adapterConf: {
153
- [x: string]: unknown;
154
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
155
- [x: string]: string;
156
- }>;
157
- afterCreate(): void;
158
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>>;
159
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
160
- readonly assemblyNameMap: Record<string, {
161
- configuration: any;
162
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
163
- error: unknown;
164
- loadingP: Promise<void> | undefined;
165
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
166
- refNameAliases: {
167
- [x: string]: string;
168
- } | undefined;
169
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
170
- } & {
171
- getConf(arg: string): any;
172
- readonly lowerCaseRefNameAliases: {
173
- [k: string]: string;
174
- } | undefined;
175
- } & {
176
- readonly initialized: boolean;
177
- readonly name: string;
178
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
179
- readonly aliases: string[];
180
- readonly displayName: string;
181
- hasName(name: string): boolean;
182
- readonly allAliases: string[];
183
- readonly allRefNames: string[] | undefined;
184
- readonly lowerCaseRefNames: string[] | undefined;
185
- readonly allRefNamesWithLowerCase: string[] | undefined;
186
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
187
- readonly refNameColors: string[];
188
- } & {
189
- readonly refNames: string[] | undefined;
190
- } & {
191
- getCanonicalRefName(refName: string): string | undefined;
192
- getRefNameColor(refName: string): string | undefined;
193
- isValidRefName(refName: string): boolean;
194
- } & {
195
- setLoaded({ regions, refNameAliases, cytobands, }: {
196
- regions: import("@jbrowse/core/util").Region[];
197
- refNameAliases: {
198
- [x: string]: string;
199
- };
200
- cytobands: import("@jbrowse/core/util").Feature[];
201
- }): void;
202
- setError(e: unknown): void;
203
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
204
- setRefNameAliases(aliases: {
205
- [x: string]: string;
206
- }): void;
207
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
208
- setLoadingP(p?: Promise<void>): void;
209
- load(): Promise<void>;
210
- loadPre(): Promise<void>;
211
- } & {
212
- getAdapterMapEntry(adapterConf: {
213
- [x: string]: unknown;
214
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
215
- getRefNameMapForAdapter(adapterConf: {
216
- [x: string]: unknown;
217
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
218
- [x: string]: string;
219
- }>;
220
- getReverseRefNameMapForAdapter(adapterConf: {
221
- [x: string]: unknown;
222
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
223
- [x: string]: string;
224
- }>;
225
- afterCreate(): void;
226
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
227
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
228
- }, {
229
- error: unknown;
230
- loadingP: Promise<void> | undefined;
231
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
232
- refNameAliases: {
233
- [x: string]: string;
234
- } | undefined;
235
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
236
- } & {
237
- getConf(arg: string): any;
238
- readonly lowerCaseRefNameAliases: {
239
- [k: string]: string;
240
- } | undefined;
241
- } & {
242
- readonly initialized: boolean;
243
- readonly name: string;
244
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
245
- readonly aliases: string[];
246
- readonly displayName: string;
247
- hasName(name: string): boolean;
248
- readonly allAliases: string[];
249
- readonly allRefNames: string[] | undefined;
250
- readonly lowerCaseRefNames: string[] | undefined;
251
- readonly allRefNamesWithLowerCase: string[] | undefined;
252
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
253
- readonly refNameColors: string[];
254
- } & {
255
- readonly refNames: string[] | undefined;
256
- } & {
257
- getCanonicalRefName(refName: string): string | undefined;
258
- getRefNameColor(refName: string): string | undefined;
259
- isValidRefName(refName: string): boolean;
260
- } & {
261
- setLoaded({ regions, refNameAliases, cytobands, }: {
262
- regions: import("@jbrowse/core/util").Region[];
263
- refNameAliases: {
264
- [x: string]: string;
265
- };
266
- cytobands: import("@jbrowse/core/util").Feature[];
267
- }): void;
268
- setError(e: unknown): void;
269
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
270
- setRefNameAliases(aliases: {
271
- [x: string]: string;
272
- }): void;
273
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
274
- setLoadingP(p?: Promise<void>): void;
275
- load(): Promise<void>;
276
- loadPre(): Promise<void>;
277
- } & {
278
- getAdapterMapEntry(adapterConf: {
279
- [x: string]: unknown;
280
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
281
- getRefNameMapForAdapter(adapterConf: {
282
- [x: string]: unknown;
283
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
284
- [x: string]: string;
285
- }>;
286
- getReverseRefNameMapForAdapter(adapterConf: {
287
- [x: string]: unknown;
288
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
289
- [x: string]: string;
290
- }>;
291
- afterCreate(): void;
292
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>>;
293
- } & {
294
- getCanonicalAssemblyName(asmName: string): string | undefined;
295
- get(asmName: string): ({
296
- configuration: any;
297
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
298
- error: unknown;
299
- loadingP: Promise<void> | undefined;
300
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
301
- refNameAliases: {
302
- [x: string]: string;
303
- } | undefined;
304
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
305
- } & {
306
- getConf(arg: string): any;
307
- readonly lowerCaseRefNameAliases: {
308
- [k: string]: string;
309
- } | undefined;
310
- } & {
311
- readonly initialized: boolean;
312
- readonly name: string;
313
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
314
- readonly aliases: string[];
315
- readonly displayName: string;
316
- hasName(name: string): boolean;
317
- readonly allAliases: string[];
318
- readonly allRefNames: string[] | undefined;
319
- readonly lowerCaseRefNames: string[] | undefined;
320
- readonly allRefNamesWithLowerCase: string[] | undefined;
321
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
322
- readonly refNameColors: string[];
323
- } & {
324
- readonly refNames: string[] | undefined;
325
- } & {
326
- getCanonicalRefName(refName: string): string | undefined;
327
- getRefNameColor(refName: string): string | undefined;
328
- isValidRefName(refName: string): boolean;
329
- } & {
330
- setLoaded({ regions, refNameAliases, cytobands, }: {
331
- regions: import("@jbrowse/core/util").Region[];
332
- refNameAliases: {
333
- [x: string]: string;
334
- };
335
- cytobands: import("@jbrowse/core/util").Feature[];
336
- }): void;
337
- setError(e: unknown): void;
338
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
339
- setRefNameAliases(aliases: {
340
- [x: string]: string;
341
- }): void;
342
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
343
- setLoadingP(p?: Promise<void>): void;
344
- load(): Promise<void>;
345
- loadPre(): Promise<void>;
346
- } & {
347
- getAdapterMapEntry(adapterConf: {
348
- [x: string]: unknown;
349
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
350
- getRefNameMapForAdapter(adapterConf: {
351
- [x: string]: unknown;
352
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
353
- [x: string]: string;
354
- }>;
355
- getReverseRefNameMapForAdapter(adapterConf: {
356
- [x: string]: unknown;
357
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
358
- [x: string]: string;
359
- }>;
360
- afterCreate(): void;
361
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
362
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
363
- }, {
364
- error: unknown;
365
- loadingP: Promise<void> | undefined;
366
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
367
- refNameAliases: {
368
- [x: string]: string;
369
- } | undefined;
370
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
371
- } & {
372
- getConf(arg: string): any;
373
- readonly lowerCaseRefNameAliases: {
374
- [k: string]: string;
375
- } | undefined;
376
- } & {
377
- readonly initialized: boolean;
378
- readonly name: string;
379
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
380
- readonly aliases: string[];
381
- readonly displayName: string;
382
- hasName(name: string): boolean;
383
- readonly allAliases: string[];
384
- readonly allRefNames: string[] | undefined;
385
- readonly lowerCaseRefNames: string[] | undefined;
386
- readonly allRefNamesWithLowerCase: string[] | undefined;
387
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
388
- readonly refNameColors: string[];
389
- } & {
390
- readonly refNames: string[] | undefined;
391
- } & {
392
- getCanonicalRefName(refName: string): string | undefined;
393
- getRefNameColor(refName: string): string | undefined;
394
- isValidRefName(refName: string): boolean;
395
- } & {
396
- setLoaded({ regions, refNameAliases, cytobands, }: {
397
- regions: import("@jbrowse/core/util").Region[];
398
- refNameAliases: {
399
- [x: string]: string;
400
- };
401
- cytobands: import("@jbrowse/core/util").Feature[];
402
- }): void;
403
- setError(e: unknown): void;
404
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
405
- setRefNameAliases(aliases: {
406
- [x: string]: string;
407
- }): void;
408
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
409
- setLoadingP(p?: Promise<void>): void;
410
- load(): Promise<void>;
411
- loadPre(): Promise<void>;
412
- } & {
413
- getAdapterMapEntry(adapterConf: {
414
- [x: string]: unknown;
415
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
416
- getRefNameMapForAdapter(adapterConf: {
417
- [x: string]: unknown;
418
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
419
- [x: string]: string;
420
- }>;
421
- getReverseRefNameMapForAdapter(adapterConf: {
422
- [x: string]: unknown;
423
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
424
- [x: string]: string;
425
- }>;
426
- afterCreate(): void;
427
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined;
428
- readonly assemblyNamesList: any[];
429
- readonly assemblyList: import("@jbrowse/core/configuration").AnyConfigurationModel[];
430
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
431
- } & {
432
- waitForAssembly(assemblyName: string): Promise<({
433
- configuration: any;
434
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
435
- error: unknown;
436
- loadingP: Promise<void> | undefined;
437
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
438
- refNameAliases: {
439
- [x: string]: string;
440
- } | undefined;
441
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
442
- } & {
443
- getConf(arg: string): any;
444
- readonly lowerCaseRefNameAliases: {
445
- [k: string]: string;
446
- } | undefined;
447
- } & {
448
- readonly initialized: boolean;
449
- readonly name: string;
450
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
451
- readonly aliases: string[];
452
- readonly displayName: string;
453
- hasName(name: string): boolean;
454
- readonly allAliases: string[];
455
- readonly allRefNames: string[] | undefined;
456
- readonly lowerCaseRefNames: string[] | undefined;
457
- readonly allRefNamesWithLowerCase: string[] | undefined;
458
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
459
- readonly refNameColors: string[];
460
- } & {
461
- readonly refNames: string[] | undefined;
462
- } & {
463
- getCanonicalRefName(refName: string): string | undefined;
464
- getRefNameColor(refName: string): string | undefined;
465
- isValidRefName(refName: string): boolean;
466
- } & {
467
- setLoaded({ regions, refNameAliases, cytobands, }: {
468
- regions: import("@jbrowse/core/util").Region[];
469
- refNameAliases: {
470
- [x: string]: string;
471
- };
472
- cytobands: import("@jbrowse/core/util").Feature[];
473
- }): void;
474
- setError(e: unknown): void;
475
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
476
- setRefNameAliases(aliases: {
477
- [x: string]: string;
478
- }): void;
479
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
480
- setLoadingP(p?: Promise<void>): void;
481
- load(): Promise<void>;
482
- loadPre(): Promise<void>;
483
- } & {
484
- getAdapterMapEntry(adapterConf: {
485
- [x: string]: unknown;
486
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
487
- getRefNameMapForAdapter(adapterConf: {
488
- [x: string]: unknown;
489
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
490
- [x: string]: string;
491
- }>;
492
- getReverseRefNameMapForAdapter(adapterConf: {
493
- [x: string]: unknown;
494
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
495
- [x: string]: string;
496
- }>;
497
- afterCreate(): void;
498
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
499
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
500
- }, {
501
- error: unknown;
502
- loadingP: Promise<void> | undefined;
503
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
504
- refNameAliases: {
505
- [x: string]: string;
506
- } | undefined;
507
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
508
- } & {
509
- getConf(arg: string): any;
510
- readonly lowerCaseRefNameAliases: {
511
- [k: string]: string;
512
- } | undefined;
513
- } & {
514
- readonly initialized: boolean;
515
- readonly name: string;
516
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
517
- readonly aliases: string[];
518
- readonly displayName: string;
519
- hasName(name: string): boolean;
520
- readonly allAliases: string[];
521
- readonly allRefNames: string[] | undefined;
522
- readonly lowerCaseRefNames: string[] | undefined;
523
- readonly allRefNamesWithLowerCase: string[] | undefined;
524
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
525
- readonly refNameColors: string[];
526
- } & {
527
- readonly refNames: string[] | undefined;
528
- } & {
529
- getCanonicalRefName(refName: string): string | undefined;
530
- getRefNameColor(refName: string): string | undefined;
531
- isValidRefName(refName: string): boolean;
532
- } & {
533
- setLoaded({ regions, refNameAliases, cytobands, }: {
534
- regions: import("@jbrowse/core/util").Region[];
535
- refNameAliases: {
536
- [x: string]: string;
537
- };
538
- cytobands: import("@jbrowse/core/util").Feature[];
539
- }): void;
540
- setError(e: unknown): void;
541
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
542
- setRefNameAliases(aliases: {
543
- [x: string]: string;
544
- }): void;
545
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
546
- setLoadingP(p?: Promise<void>): void;
547
- load(): Promise<void>;
548
- loadPre(): Promise<void>;
549
- } & {
550
- getAdapterMapEntry(adapterConf: {
551
- [x: string]: unknown;
552
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
553
- getRefNameMapForAdapter(adapterConf: {
554
- [x: string]: unknown;
555
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
556
- [x: string]: string;
557
- }>;
558
- getReverseRefNameMapForAdapter(adapterConf: {
559
- [x: string]: unknown;
560
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
561
- [x: string]: string;
562
- }>;
563
- afterCreate(): void;
564
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined>;
565
- getRefNameMapForAdapter(adapterConf: {
566
- [x: string]: unknown;
567
- }, assemblyName: string | undefined, opts: {
568
- stopToken?: string;
569
- sessionId: string;
570
- }): Promise<{
571
- [x: string]: string;
572
- } | undefined>;
573
- getReverseRefNameMapForAdapter(adapterConf: {
574
- [x: string]: unknown;
575
- }, assemblyName: string | undefined, opts: {
576
- stopToken?: string;
577
- sessionId: string;
578
- }): Promise<{
579
- [x: string]: string;
580
- } | undefined>;
581
- isValidRefName(refName: string, assemblyName: string): boolean;
582
- } & {
583
- afterAttach(): void;
584
- removeAssembly(asm: import("@jbrowse/core/assemblyManager/assembly").Assembly): void;
585
- addAssembly(configuration: any): void;
586
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IModelType<{
587
- assemblies: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IModelType<{
588
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
589
- }, {
590
- error: unknown;
591
- loadingP: Promise<void> | undefined;
592
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
593
- refNameAliases: {
594
- [x: string]: string;
595
- } | undefined;
596
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
597
- } & {
598
- getConf(arg: string): any;
599
- readonly lowerCaseRefNameAliases: {
600
- [k: string]: string;
601
- } | undefined;
602
- } & {
603
- readonly initialized: boolean;
604
- readonly name: string;
605
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
606
- readonly aliases: string[];
607
- readonly displayName: string;
608
- hasName(name: string): boolean;
609
- readonly allAliases: string[];
610
- readonly allRefNames: string[] | undefined;
611
- readonly lowerCaseRefNames: string[] | undefined;
612
- readonly allRefNamesWithLowerCase: string[] | undefined;
613
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
614
- readonly refNameColors: string[];
615
- } & {
616
- readonly refNames: string[] | undefined;
617
- } & {
618
- getCanonicalRefName(refName: string): string | undefined;
619
- getRefNameColor(refName: string): string | undefined;
620
- isValidRefName(refName: string): boolean;
621
- } & {
622
- setLoaded({ regions, refNameAliases, cytobands, }: {
623
- regions: import("@jbrowse/core/util").Region[];
624
- refNameAliases: {
625
- [x: string]: string;
626
- };
627
- cytobands: import("@jbrowse/core/util").Feature[];
628
- }): void;
629
- setError(e: unknown): void;
630
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
631
- setRefNameAliases(aliases: {
632
- [x: string]: string;
633
- }): void;
634
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
635
- setLoadingP(p?: Promise<void>): void;
636
- load(): Promise<void>;
637
- loadPre(): Promise<void>;
638
- } & {
639
- getAdapterMapEntry(adapterConf: {
640
- [x: string]: unknown;
641
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
642
- getRefNameMapForAdapter(adapterConf: {
643
- [x: string]: unknown;
644
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
645
- [x: string]: string;
646
- }>;
647
- getReverseRefNameMapForAdapter(adapterConf: {
648
- [x: string]: unknown;
649
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
650
- [x: string]: string;
651
- }>;
652
- afterCreate(): void;
653
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
654
- }, {
655
- readonly assemblyNameMap: Record<string, {
656
- configuration: any;
657
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
658
- error: unknown;
659
- loadingP: Promise<void> | undefined;
660
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
661
- refNameAliases: {
662
- [x: string]: string;
663
- } | undefined;
664
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
665
- } & {
666
- getConf(arg: string): any;
667
- readonly lowerCaseRefNameAliases: {
668
- [k: string]: string;
669
- } | undefined;
670
- } & {
671
- readonly initialized: boolean;
672
- readonly name: string;
673
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
674
- readonly aliases: string[];
675
- readonly displayName: string;
676
- hasName(name: string): boolean;
677
- readonly allAliases: string[];
678
- readonly allRefNames: string[] | undefined;
679
- readonly lowerCaseRefNames: string[] | undefined;
680
- readonly allRefNamesWithLowerCase: string[] | undefined;
681
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
682
- readonly refNameColors: string[];
683
- } & {
684
- readonly refNames: string[] | undefined;
685
- } & {
686
- getCanonicalRefName(refName: string): string | undefined;
687
- getRefNameColor(refName: string): string | undefined;
688
- isValidRefName(refName: string): boolean;
689
- } & {
690
- setLoaded({ regions, refNameAliases, cytobands, }: {
691
- regions: import("@jbrowse/core/util").Region[];
692
- refNameAliases: {
693
- [x: string]: string;
694
- };
695
- cytobands: import("@jbrowse/core/util").Feature[];
696
- }): void;
697
- setError(e: unknown): void;
698
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
699
- setRefNameAliases(aliases: {
700
- [x: string]: string;
701
- }): void;
702
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
703
- setLoadingP(p?: Promise<void>): void;
704
- load(): Promise<void>;
705
- loadPre(): Promise<void>;
706
- } & {
707
- getAdapterMapEntry(adapterConf: {
708
- [x: string]: unknown;
709
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
710
- getRefNameMapForAdapter(adapterConf: {
711
- [x: string]: unknown;
712
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
713
- [x: string]: string;
714
- }>;
715
- getReverseRefNameMapForAdapter(adapterConf: {
716
- [x: string]: unknown;
717
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
718
- [x: string]: string;
719
- }>;
720
- afterCreate(): void;
721
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
722
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
723
- }, {
724
- error: unknown;
725
- loadingP: Promise<void> | undefined;
726
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
727
- refNameAliases: {
728
- [x: string]: string;
729
- } | undefined;
730
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
731
- } & {
732
- getConf(arg: string): any;
733
- readonly lowerCaseRefNameAliases: {
734
- [k: string]: string;
735
- } | undefined;
736
- } & {
737
- readonly initialized: boolean;
738
- readonly name: string;
739
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
740
- readonly aliases: string[];
741
- readonly displayName: string;
742
- hasName(name: string): boolean;
743
- readonly allAliases: string[];
744
- readonly allRefNames: string[] | undefined;
745
- readonly lowerCaseRefNames: string[] | undefined;
746
- readonly allRefNamesWithLowerCase: string[] | undefined;
747
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
748
- readonly refNameColors: string[];
749
- } & {
750
- readonly refNames: string[] | undefined;
751
- } & {
752
- getCanonicalRefName(refName: string): string | undefined;
753
- getRefNameColor(refName: string): string | undefined;
754
- isValidRefName(refName: string): boolean;
755
- } & {
756
- setLoaded({ regions, refNameAliases, cytobands, }: {
757
- regions: import("@jbrowse/core/util").Region[];
758
- refNameAliases: {
759
- [x: string]: string;
760
- };
761
- cytobands: import("@jbrowse/core/util").Feature[];
762
- }): void;
763
- setError(e: unknown): void;
764
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
765
- setRefNameAliases(aliases: {
766
- [x: string]: string;
767
- }): void;
768
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
769
- setLoadingP(p?: Promise<void>): void;
770
- load(): Promise<void>;
771
- loadPre(): Promise<void>;
772
- } & {
773
- getAdapterMapEntry(adapterConf: {
774
- [x: string]: unknown;
775
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
776
- getRefNameMapForAdapter(adapterConf: {
777
- [x: string]: unknown;
778
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
779
- [x: string]: string;
780
- }>;
781
- getReverseRefNameMapForAdapter(adapterConf: {
782
- [x: string]: unknown;
783
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
784
- [x: string]: string;
785
- }>;
786
- afterCreate(): void;
787
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>>;
788
- } & {
789
- getCanonicalAssemblyName(asmName: string): string | undefined;
790
- get(asmName: string): ({
791
- configuration: any;
792
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
793
- error: unknown;
794
- loadingP: Promise<void> | undefined;
795
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
796
- refNameAliases: {
797
- [x: string]: string;
798
- } | undefined;
799
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
800
- } & {
801
- getConf(arg: string): any;
802
- readonly lowerCaseRefNameAliases: {
803
- [k: string]: string;
804
- } | undefined;
805
- } & {
806
- readonly initialized: boolean;
807
- readonly name: string;
808
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
809
- readonly aliases: string[];
810
- readonly displayName: string;
811
- hasName(name: string): boolean;
812
- readonly allAliases: string[];
813
- readonly allRefNames: string[] | undefined;
814
- readonly lowerCaseRefNames: string[] | undefined;
815
- readonly allRefNamesWithLowerCase: string[] | undefined;
816
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
817
- readonly refNameColors: string[];
818
- } & {
819
- readonly refNames: string[] | undefined;
820
- } & {
821
- getCanonicalRefName(refName: string): string | undefined;
822
- getRefNameColor(refName: string): string | undefined;
823
- isValidRefName(refName: string): boolean;
824
- } & {
825
- setLoaded({ regions, refNameAliases, cytobands, }: {
826
- regions: import("@jbrowse/core/util").Region[];
827
- refNameAliases: {
828
- [x: string]: string;
829
- };
830
- cytobands: import("@jbrowse/core/util").Feature[];
831
- }): void;
832
- setError(e: unknown): void;
833
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
834
- setRefNameAliases(aliases: {
835
- [x: string]: string;
836
- }): void;
837
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
838
- setLoadingP(p?: Promise<void>): void;
839
- load(): Promise<void>;
840
- loadPre(): Promise<void>;
841
- } & {
842
- getAdapterMapEntry(adapterConf: {
843
- [x: string]: unknown;
844
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
845
- getRefNameMapForAdapter(adapterConf: {
846
- [x: string]: unknown;
847
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
848
- [x: string]: string;
849
- }>;
850
- getReverseRefNameMapForAdapter(adapterConf: {
851
- [x: string]: unknown;
852
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
853
- [x: string]: string;
854
- }>;
855
- afterCreate(): void;
856
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
857
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
858
- }, {
859
- error: unknown;
860
- loadingP: Promise<void> | undefined;
861
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
862
- refNameAliases: {
863
- [x: string]: string;
864
- } | undefined;
865
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
866
- } & {
867
- getConf(arg: string): any;
868
- readonly lowerCaseRefNameAliases: {
869
- [k: string]: string;
870
- } | undefined;
871
- } & {
872
- readonly initialized: boolean;
873
- readonly name: string;
874
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
875
- readonly aliases: string[];
876
- readonly displayName: string;
877
- hasName(name: string): boolean;
878
- readonly allAliases: string[];
879
- readonly allRefNames: string[] | undefined;
880
- readonly lowerCaseRefNames: string[] | undefined;
881
- readonly allRefNamesWithLowerCase: string[] | undefined;
882
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
883
- readonly refNameColors: string[];
884
- } & {
885
- readonly refNames: string[] | undefined;
886
- } & {
887
- getCanonicalRefName(refName: string): string | undefined;
888
- getRefNameColor(refName: string): string | undefined;
889
- isValidRefName(refName: string): boolean;
890
- } & {
891
- setLoaded({ regions, refNameAliases, cytobands, }: {
892
- regions: import("@jbrowse/core/util").Region[];
893
- refNameAliases: {
894
- [x: string]: string;
895
- };
896
- cytobands: import("@jbrowse/core/util").Feature[];
897
- }): void;
898
- setError(e: unknown): void;
899
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
900
- setRefNameAliases(aliases: {
901
- [x: string]: string;
902
- }): void;
903
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
904
- setLoadingP(p?: Promise<void>): void;
905
- load(): Promise<void>;
906
- loadPre(): Promise<void>;
907
- } & {
908
- getAdapterMapEntry(adapterConf: {
909
- [x: string]: unknown;
910
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
911
- getRefNameMapForAdapter(adapterConf: {
912
- [x: string]: unknown;
913
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
914
- [x: string]: string;
915
- }>;
916
- getReverseRefNameMapForAdapter(adapterConf: {
917
- [x: string]: unknown;
918
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
919
- [x: string]: string;
920
- }>;
921
- afterCreate(): void;
922
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined;
923
- readonly assemblyNamesList: any[];
924
- readonly assemblyList: import("@jbrowse/core/configuration").AnyConfigurationModel[];
925
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
926
- } & {
927
- waitForAssembly(assemblyName: string): Promise<({
928
- configuration: any;
929
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
930
- error: unknown;
931
- loadingP: Promise<void> | undefined;
932
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
933
- refNameAliases: {
934
- [x: string]: string;
935
- } | undefined;
936
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
937
- } & {
938
- getConf(arg: string): any;
939
- readonly lowerCaseRefNameAliases: {
940
- [k: string]: string;
941
- } | undefined;
942
- } & {
943
- readonly initialized: boolean;
944
- readonly name: string;
945
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
946
- readonly aliases: string[];
947
- readonly displayName: string;
948
- hasName(name: string): boolean;
949
- readonly allAliases: string[];
950
- readonly allRefNames: string[] | undefined;
951
- readonly lowerCaseRefNames: string[] | undefined;
952
- readonly allRefNamesWithLowerCase: string[] | undefined;
953
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
954
- readonly refNameColors: string[];
955
- } & {
956
- readonly refNames: string[] | undefined;
957
- } & {
958
- getCanonicalRefName(refName: string): string | undefined;
959
- getRefNameColor(refName: string): string | undefined;
960
- isValidRefName(refName: string): boolean;
961
- } & {
962
- setLoaded({ regions, refNameAliases, cytobands, }: {
963
- regions: import("@jbrowse/core/util").Region[];
964
- refNameAliases: {
965
- [x: string]: string;
966
- };
967
- cytobands: import("@jbrowse/core/util").Feature[];
968
- }): void;
969
- setError(e: unknown): void;
970
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
971
- setRefNameAliases(aliases: {
972
- [x: string]: string;
973
- }): void;
974
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
975
- setLoadingP(p?: Promise<void>): void;
976
- load(): Promise<void>;
977
- loadPre(): Promise<void>;
978
- } & {
979
- getAdapterMapEntry(adapterConf: {
980
- [x: string]: unknown;
981
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
982
- getRefNameMapForAdapter(adapterConf: {
983
- [x: string]: unknown;
984
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
985
- [x: string]: string;
986
- }>;
987
- getReverseRefNameMapForAdapter(adapterConf: {
988
- [x: string]: unknown;
989
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
990
- [x: string]: string;
991
- }>;
992
- afterCreate(): void;
993
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
994
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
995
- }, {
996
- error: unknown;
997
- loadingP: Promise<void> | undefined;
998
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
999
- refNameAliases: {
1000
- [x: string]: string;
1001
- } | undefined;
1002
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1003
- } & {
1004
- getConf(arg: string): any;
1005
- readonly lowerCaseRefNameAliases: {
1006
- [k: string]: string;
1007
- } | undefined;
1008
- } & {
1009
- readonly initialized: boolean;
1010
- readonly name: string;
1011
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1012
- readonly aliases: string[];
1013
- readonly displayName: string;
1014
- hasName(name: string): boolean;
1015
- readonly allAliases: string[];
1016
- readonly allRefNames: string[] | undefined;
1017
- readonly lowerCaseRefNames: string[] | undefined;
1018
- readonly allRefNamesWithLowerCase: string[] | undefined;
1019
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
1020
- readonly refNameColors: string[];
1021
- } & {
1022
- readonly refNames: string[] | undefined;
1023
- } & {
1024
- getCanonicalRefName(refName: string): string | undefined;
1025
- getRefNameColor(refName: string): string | undefined;
1026
- isValidRefName(refName: string): boolean;
1027
- } & {
1028
- setLoaded({ regions, refNameAliases, cytobands, }: {
1029
- regions: import("@jbrowse/core/util").Region[];
1030
- refNameAliases: {
1031
- [x: string]: string;
1032
- };
1033
- cytobands: import("@jbrowse/core/util").Feature[];
1034
- }): void;
1035
- setError(e: unknown): void;
1036
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
1037
- setRefNameAliases(aliases: {
1038
- [x: string]: string;
1039
- }): void;
1040
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
1041
- setLoadingP(p?: Promise<void>): void;
1042
- load(): Promise<void>;
1043
- loadPre(): Promise<void>;
1044
- } & {
1045
- getAdapterMapEntry(adapterConf: {
1046
- [x: string]: unknown;
1047
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
1048
- getRefNameMapForAdapter(adapterConf: {
1049
- [x: string]: unknown;
1050
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
1051
- [x: string]: string;
1052
- }>;
1053
- getReverseRefNameMapForAdapter(adapterConf: {
1054
- [x: string]: unknown;
1055
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
1056
- [x: string]: string;
1057
- }>;
1058
- afterCreate(): void;
1059
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined>;
1060
- getRefNameMapForAdapter(adapterConf: {
1061
- [x: string]: unknown;
1062
- }, assemblyName: string | undefined, opts: {
1063
- stopToken?: string;
1064
- sessionId: string;
1065
- }): Promise<{
1066
- [x: string]: string;
1067
- } | undefined>;
1068
- getReverseRefNameMapForAdapter(adapterConf: {
1069
- [x: string]: unknown;
1070
- }, assemblyName: string | undefined, opts: {
1071
- stopToken?: string;
1072
- sessionId: string;
1073
- }): Promise<{
1074
- [x: string]: string;
1075
- } | undefined>;
1076
- isValidRefName(refName: string, assemblyName: string): boolean;
1077
- } & {
1078
- afterAttach(): void;
1079
- removeAssembly(asm: import("@jbrowse/core/assemblyManager/assembly").Assembly): void;
1080
- addAssembly(configuration: any): void;
1081
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>, [undefined]>>;
1082
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1083
- rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
1084
- adminMode: boolean;
1085
- error: unknown;
1086
- textSearchManager: import("@jbrowse/core/util").TextSearchManager;
1087
- pluginManager: PluginManager;
1088
- } & {
1089
- setError(error: unknown): void;
1090
- setSession(sessionSnapshot?: import("mobx-state-tree").SnapshotIn<import("mobx-state-tree").IAnyType>): void;
1091
- setDefaultSession(): void;
1092
- setSessionPath(path: string): void;
1093
- renameCurrentSession(newName: string): void;
1094
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
1095
- jbrowse: import("mobx-state-tree").IAnyType;
1096
- session: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IAnyType>;
1097
- sessionPath: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
1098
- assemblyManager: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IModelType<{
1099
- assemblies: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IModelType<{
1100
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
1101
- }, {
1102
- error: unknown;
1103
- loadingP: Promise<void> | undefined;
1104
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1105
- refNameAliases: {
1106
- [x: string]: string;
1107
- } | undefined;
1108
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1109
- } & {
1110
- getConf(arg: string): any;
1111
- readonly lowerCaseRefNameAliases: {
1112
- [k: string]: string;
1113
- } | undefined;
1114
- } & {
1115
- readonly initialized: boolean;
1116
- readonly name: string;
1117
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1118
- readonly aliases: string[];
1119
- readonly displayName: string;
1120
- hasName(name: string): boolean;
1121
- readonly allAliases: string[];
1122
- readonly allRefNames: string[] | undefined;
1123
- readonly lowerCaseRefNames: string[] | undefined;
1124
- readonly allRefNamesWithLowerCase: string[] | undefined;
1125
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
1126
- readonly refNameColors: string[];
1127
- } & {
1128
- readonly refNames: string[] | undefined;
1129
- } & {
1130
- getCanonicalRefName(refName: string): string | undefined;
1131
- getRefNameColor(refName: string): string | undefined;
1132
- isValidRefName(refName: string): boolean;
1133
- } & {
1134
- setLoaded({ regions, refNameAliases, cytobands, }: {
1135
- regions: import("@jbrowse/core/util").Region[];
1136
- refNameAliases: {
1137
- [x: string]: string;
1138
- };
1139
- cytobands: import("@jbrowse/core/util").Feature[];
1140
- }): void;
1141
- setError(e: unknown): void;
1142
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
1143
- setRefNameAliases(aliases: {
1144
- [x: string]: string;
1145
- }): void;
1146
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
1147
- setLoadingP(p?: Promise<void>): void;
1148
- load(): Promise<void>;
1149
- loadPre(): Promise<void>;
1150
- } & {
1151
- getAdapterMapEntry(adapterConf: {
1152
- [x: string]: unknown;
1153
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
1154
- getRefNameMapForAdapter(adapterConf: {
1155
- [x: string]: unknown;
1156
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
1157
- [x: string]: string;
1158
- }>;
1159
- getReverseRefNameMapForAdapter(adapterConf: {
1160
- [x: string]: unknown;
1161
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
1162
- [x: string]: string;
1163
- }>;
1164
- afterCreate(): void;
1165
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
1166
- }, {
1167
- readonly assemblyNameMap: Record<string, {
1168
- configuration: any;
1169
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1170
- error: unknown;
1171
- loadingP: Promise<void> | undefined;
1172
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1173
- refNameAliases: {
1174
- [x: string]: string;
1175
- } | undefined;
1176
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1177
- } & {
1178
- getConf(arg: string): any;
1179
- readonly lowerCaseRefNameAliases: {
1180
- [k: string]: string;
1181
- } | undefined;
1182
- } & {
1183
- readonly initialized: boolean;
1184
- readonly name: string;
1185
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1186
- readonly aliases: string[];
1187
- readonly displayName: string;
1188
- hasName(name: string): boolean;
1189
- readonly allAliases: string[];
1190
- readonly allRefNames: string[] | undefined;
1191
- readonly lowerCaseRefNames: string[] | undefined;
1192
- readonly allRefNamesWithLowerCase: string[] | undefined;
1193
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
1194
- readonly refNameColors: string[];
1195
- } & {
1196
- readonly refNames: string[] | undefined;
1197
- } & {
1198
- getCanonicalRefName(refName: string): string | undefined;
1199
- getRefNameColor(refName: string): string | undefined;
1200
- isValidRefName(refName: string): boolean;
1201
- } & {
1202
- setLoaded({ regions, refNameAliases, cytobands, }: {
1203
- regions: import("@jbrowse/core/util").Region[];
1204
- refNameAliases: {
1205
- [x: string]: string;
1206
- };
1207
- cytobands: import("@jbrowse/core/util").Feature[];
1208
- }): void;
1209
- setError(e: unknown): void;
1210
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
1211
- setRefNameAliases(aliases: {
1212
- [x: string]: string;
1213
- }): void;
1214
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
1215
- setLoadingP(p?: Promise<void>): void;
1216
- load(): Promise<void>;
1217
- loadPre(): Promise<void>;
1218
- } & {
1219
- getAdapterMapEntry(adapterConf: {
1220
- [x: string]: unknown;
1221
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
1222
- getRefNameMapForAdapter(adapterConf: {
1223
- [x: string]: unknown;
1224
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
1225
- [x: string]: string;
1226
- }>;
1227
- getReverseRefNameMapForAdapter(adapterConf: {
1228
- [x: string]: unknown;
1229
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
1230
- [x: string]: string;
1231
- }>;
1232
- afterCreate(): void;
1233
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
1234
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
1235
- }, {
1236
- error: unknown;
1237
- loadingP: Promise<void> | undefined;
1238
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1239
- refNameAliases: {
1240
- [x: string]: string;
1241
- } | undefined;
1242
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1243
- } & {
1244
- getConf(arg: string): any;
1245
- readonly lowerCaseRefNameAliases: {
1246
- [k: string]: string;
1247
- } | undefined;
1248
- } & {
1249
- readonly initialized: boolean;
1250
- readonly name: string;
1251
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1252
- readonly aliases: string[];
1253
- readonly displayName: string;
1254
- hasName(name: string): boolean;
1255
- readonly allAliases: string[];
1256
- readonly allRefNames: string[] | undefined;
1257
- readonly lowerCaseRefNames: string[] | undefined;
1258
- readonly allRefNamesWithLowerCase: string[] | undefined;
1259
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
1260
- readonly refNameColors: string[];
1261
- } & {
1262
- readonly refNames: string[] | undefined;
1263
- } & {
1264
- getCanonicalRefName(refName: string): string | undefined;
1265
- getRefNameColor(refName: string): string | undefined;
1266
- isValidRefName(refName: string): boolean;
1267
- } & {
1268
- setLoaded({ regions, refNameAliases, cytobands, }: {
1269
- regions: import("@jbrowse/core/util").Region[];
1270
- refNameAliases: {
1271
- [x: string]: string;
1272
- };
1273
- cytobands: import("@jbrowse/core/util").Feature[];
1274
- }): void;
1275
- setError(e: unknown): void;
1276
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
1277
- setRefNameAliases(aliases: {
1278
- [x: string]: string;
1279
- }): void;
1280
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
1281
- setLoadingP(p?: Promise<void>): void;
1282
- load(): Promise<void>;
1283
- loadPre(): Promise<void>;
1284
- } & {
1285
- getAdapterMapEntry(adapterConf: {
1286
- [x: string]: unknown;
1287
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
1288
- getRefNameMapForAdapter(adapterConf: {
1289
- [x: string]: unknown;
1290
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
1291
- [x: string]: string;
1292
- }>;
1293
- getReverseRefNameMapForAdapter(adapterConf: {
1294
- [x: string]: unknown;
1295
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
1296
- [x: string]: string;
1297
- }>;
1298
- afterCreate(): void;
1299
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>>;
1300
- } & {
1301
- getCanonicalAssemblyName(asmName: string): string | undefined;
1302
- get(asmName: string): ({
1303
- configuration: any;
1304
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1305
- error: unknown;
1306
- loadingP: Promise<void> | undefined;
1307
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1308
- refNameAliases: {
1309
- [x: string]: string;
1310
- } | undefined;
1311
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1312
- } & {
1313
- getConf(arg: string): any;
1314
- readonly lowerCaseRefNameAliases: {
1315
- [k: string]: string;
1316
- } | undefined;
1317
- } & {
1318
- readonly initialized: boolean;
1319
- readonly name: string;
1320
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1321
- readonly aliases: string[];
1322
- readonly displayName: string;
1323
- hasName(name: string): boolean;
1324
- readonly allAliases: string[];
1325
- readonly allRefNames: string[] | undefined;
1326
- readonly lowerCaseRefNames: string[] | undefined;
1327
- readonly allRefNamesWithLowerCase: string[] | undefined;
1328
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
1329
- readonly refNameColors: string[];
1330
- } & {
1331
- readonly refNames: string[] | undefined;
1332
- } & {
1333
- getCanonicalRefName(refName: string): string | undefined;
1334
- getRefNameColor(refName: string): string | undefined;
1335
- isValidRefName(refName: string): boolean;
1336
- } & {
1337
- setLoaded({ regions, refNameAliases, cytobands, }: {
1338
- regions: import("@jbrowse/core/util").Region[];
1339
- refNameAliases: {
1340
- [x: string]: string;
1341
- };
1342
- cytobands: import("@jbrowse/core/util").Feature[];
1343
- }): void;
1344
- setError(e: unknown): void;
1345
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
1346
- setRefNameAliases(aliases: {
1347
- [x: string]: string;
1348
- }): void;
1349
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
1350
- setLoadingP(p?: Promise<void>): void;
1351
- load(): Promise<void>;
1352
- loadPre(): Promise<void>;
1353
- } & {
1354
- getAdapterMapEntry(adapterConf: {
1355
- [x: string]: unknown;
1356
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
1357
- getRefNameMapForAdapter(adapterConf: {
1358
- [x: string]: unknown;
1359
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
1360
- [x: string]: string;
1361
- }>;
1362
- getReverseRefNameMapForAdapter(adapterConf: {
1363
- [x: string]: unknown;
1364
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
1365
- [x: string]: string;
1366
- }>;
1367
- afterCreate(): void;
1368
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
1369
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
1370
- }, {
1371
- error: unknown;
1372
- loadingP: Promise<void> | undefined;
1373
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1374
- refNameAliases: {
1375
- [x: string]: string;
1376
- } | undefined;
1377
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1378
- } & {
1379
- getConf(arg: string): any;
1380
- readonly lowerCaseRefNameAliases: {
1381
- [k: string]: string;
1382
- } | undefined;
1383
- } & {
1384
- readonly initialized: boolean;
1385
- readonly name: string;
1386
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1387
- readonly aliases: string[];
1388
- readonly displayName: string;
1389
- hasName(name: string): boolean;
1390
- readonly allAliases: string[];
1391
- readonly allRefNames: string[] | undefined;
1392
- readonly lowerCaseRefNames: string[] | undefined;
1393
- readonly allRefNamesWithLowerCase: string[] | undefined;
1394
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
1395
- readonly refNameColors: string[];
1396
- } & {
1397
- readonly refNames: string[] | undefined;
1398
- } & {
1399
- getCanonicalRefName(refName: string): string | undefined;
1400
- getRefNameColor(refName: string): string | undefined;
1401
- isValidRefName(refName: string): boolean;
1402
- } & {
1403
- setLoaded({ regions, refNameAliases, cytobands, }: {
1404
- regions: import("@jbrowse/core/util").Region[];
1405
- refNameAliases: {
1406
- [x: string]: string;
1407
- };
1408
- cytobands: import("@jbrowse/core/util").Feature[];
1409
- }): void;
1410
- setError(e: unknown): void;
1411
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
1412
- setRefNameAliases(aliases: {
1413
- [x: string]: string;
1414
- }): void;
1415
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
1416
- setLoadingP(p?: Promise<void>): void;
1417
- load(): Promise<void>;
1418
- loadPre(): Promise<void>;
1419
- } & {
1420
- getAdapterMapEntry(adapterConf: {
1421
- [x: string]: unknown;
1422
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
1423
- getRefNameMapForAdapter(adapterConf: {
1424
- [x: string]: unknown;
1425
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
1426
- [x: string]: string;
1427
- }>;
1428
- getReverseRefNameMapForAdapter(adapterConf: {
1429
- [x: string]: unknown;
1430
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
1431
- [x: string]: string;
1432
- }>;
1433
- afterCreate(): void;
1434
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined;
1435
- readonly assemblyNamesList: any[];
1436
- readonly assemblyList: import("@jbrowse/core/configuration").AnyConfigurationModel[];
1437
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
1438
- } & {
1439
- waitForAssembly(assemblyName: string): Promise<({
1440
- configuration: any;
1441
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1442
- error: unknown;
1443
- loadingP: Promise<void> | undefined;
1444
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1445
- refNameAliases: {
1446
- [x: string]: string;
1447
- } | undefined;
1448
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1449
- } & {
1450
- getConf(arg: string): any;
1451
- readonly lowerCaseRefNameAliases: {
1452
- [k: string]: string;
1453
- } | undefined;
1454
- } & {
1455
- readonly initialized: boolean;
1456
- readonly name: string;
1457
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1458
- readonly aliases: string[];
1459
- readonly displayName: string;
1460
- hasName(name: string): boolean;
1461
- readonly allAliases: string[];
1462
- readonly allRefNames: string[] | undefined;
1463
- readonly lowerCaseRefNames: string[] | undefined;
1464
- readonly allRefNamesWithLowerCase: string[] | undefined;
1465
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
1466
- readonly refNameColors: string[];
1467
- } & {
1468
- readonly refNames: string[] | undefined;
1469
- } & {
1470
- getCanonicalRefName(refName: string): string | undefined;
1471
- getRefNameColor(refName: string): string | undefined;
1472
- isValidRefName(refName: string): boolean;
1473
- } & {
1474
- setLoaded({ regions, refNameAliases, cytobands, }: {
1475
- regions: import("@jbrowse/core/util").Region[];
1476
- refNameAliases: {
1477
- [x: string]: string;
1478
- };
1479
- cytobands: import("@jbrowse/core/util").Feature[];
1480
- }): void;
1481
- setError(e: unknown): void;
1482
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
1483
- setRefNameAliases(aliases: {
1484
- [x: string]: string;
1485
- }): void;
1486
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
1487
- setLoadingP(p?: Promise<void>): void;
1488
- load(): Promise<void>;
1489
- loadPre(): Promise<void>;
1490
- } & {
1491
- getAdapterMapEntry(adapterConf: {
1492
- [x: string]: unknown;
1493
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
1494
- getRefNameMapForAdapter(adapterConf: {
1495
- [x: string]: unknown;
1496
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
1497
- [x: string]: string;
1498
- }>;
1499
- getReverseRefNameMapForAdapter(adapterConf: {
1500
- [x: string]: unknown;
1501
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
1502
- [x: string]: string;
1503
- }>;
1504
- afterCreate(): void;
1505
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
1506
- configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
1507
- }, {
1508
- error: unknown;
1509
- loadingP: Promise<void> | undefined;
1510
- volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1511
- refNameAliases: {
1512
- [x: string]: string;
1513
- } | undefined;
1514
- cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1515
- } & {
1516
- getConf(arg: string): any;
1517
- readonly lowerCaseRefNameAliases: {
1518
- [k: string]: string;
1519
- } | undefined;
1520
- } & {
1521
- readonly initialized: boolean;
1522
- readonly name: string;
1523
- readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1524
- readonly aliases: string[];
1525
- readonly displayName: string;
1526
- hasName(name: string): boolean;
1527
- readonly allAliases: string[];
1528
- readonly allRefNames: string[] | undefined;
1529
- readonly lowerCaseRefNames: string[] | undefined;
1530
- readonly allRefNamesWithLowerCase: string[] | undefined;
1531
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
1532
- readonly refNameColors: string[];
1533
- } & {
1534
- readonly refNames: string[] | undefined;
1535
- } & {
1536
- getCanonicalRefName(refName: string): string | undefined;
1537
- getRefNameColor(refName: string): string | undefined;
1538
- isValidRefName(refName: string): boolean;
1539
- } & {
1540
- setLoaded({ regions, refNameAliases, cytobands, }: {
1541
- regions: import("@jbrowse/core/util").Region[];
1542
- refNameAliases: {
1543
- [x: string]: string;
1544
- };
1545
- cytobands: import("@jbrowse/core/util").Feature[];
1546
- }): void;
1547
- setError(e: unknown): void;
1548
- setRegions(regions: import("@jbrowse/core/util").Region[]): void;
1549
- setRefNameAliases(aliases: {
1550
- [x: string]: string;
1551
- }): void;
1552
- setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
1553
- setLoadingP(p?: Promise<void>): void;
1554
- load(): Promise<void>;
1555
- loadPre(): Promise<void>;
1556
- } & {
1557
- getAdapterMapEntry(adapterConf: {
1558
- [x: string]: unknown;
1559
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
1560
- getRefNameMapForAdapter(adapterConf: {
1561
- [x: string]: unknown;
1562
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
1563
- [x: string]: string;
1564
- }>;
1565
- getReverseRefNameMapForAdapter(adapterConf: {
1566
- [x: string]: unknown;
1567
- }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
1568
- [x: string]: string;
1569
- }>;
1570
- afterCreate(): void;
1571
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined>;
1572
- getRefNameMapForAdapter(adapterConf: {
1573
- [x: string]: unknown;
1574
- }, assemblyName: string | undefined, opts: {
1575
- stopToken?: string;
1576
- sessionId: string;
1577
- }): Promise<{
1578
- [x: string]: string;
1579
- } | undefined>;
1580
- getReverseRefNameMapForAdapter(adapterConf: {
1581
- [x: string]: unknown;
1582
- }, assemblyName: string | undefined, opts: {
1583
- stopToken?: string;
1584
- sessionId: string;
1585
- }): Promise<{
1586
- [x: string]: string;
1587
- } | undefined>;
1588
- isValidRefName(refName: string, assemblyName: string): boolean;
1589
- } & {
1590
- afterAttach(): void;
1591
- removeAssembly(asm: import("@jbrowse/core/assemblyManager/assembly").Assembly): void;
1592
- addAssembly(configuration: any): void;
1593
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>, [undefined]>;
1594
- }, {
1595
- rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
1596
- adminMode: boolean;
1597
- error: unknown;
1598
- textSearchManager: import("@jbrowse/core/util").TextSearchManager;
1599
- pluginManager: PluginManager;
1600
- } & {
1601
- setError(error: unknown): void;
1602
- setSession(sessionSnapshot?: import("mobx-state-tree").SnapshotIn<import("mobx-state-tree").IAnyType>): void;
1603
- setDefaultSession(): void;
1604
- setSessionPath(path: string): void;
1605
- renameCurrentSession(newName: string): void;
1606
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
1607
- } & {
1608
- readonly jbrowse: any;
1609
- readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
1610
- readonly configuration: {
1611
- [x: string]: any;
1612
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1613
- setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
1614
- [x: string]: any;
1615
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
1616
- setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
1617
- [x: string]: any;
1618
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & any & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
1619
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
1620
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>;
1621
- readonly adminMode: boolean;
1622
- readonly textSearchManager: import("@jbrowse/core/util").TextSearchManager;
1623
- } & {
1624
- readonly assemblies: Instance<import("@jbrowse/core/assemblyManager").BaseAssemblyConfigSchema>[];
1625
- } & {
1626
- setSelection(thing: unknown): void;
1627
- clearSelection(): void;
1628
- setHovered(thing: unknown): void;
1629
- } & {
1630
- readonly visibleWidget: any;
1631
- } & {
1632
- setDrawerPosition(arg: string): void;
1633
- updateDrawerWidth(drawerWidth: number): number;
1634
- resizeDrawer(distance: number): number;
1635
- addWidget(typeName: string, id: string, initialState?: {}, conf?: unknown): any;
1636
- showWidget(widget: any): void;
1637
- hasWidget(widget: any): boolean;
1638
- hideWidget(widget: any): void;
1639
- minimizeWidgetDrawer(): void;
1640
- showWidgetDrawer(): void;
1641
- hideAllWidgets(): void;
1642
- editConfiguration(configuration: import("@jbrowse/core/configuration").AnyConfigurationModel): void;
1643
- afterAttach(): void;
1644
- } & {
1645
- moveViewDown(id: string): void;
1646
- moveViewUp(id: string): void;
1647
- moveViewToTop(id: string): void;
1648
- moveViewToBottom(id: string): void;
1649
- addView(typeName: string, initialState?: {}): any;
1650
- removeView(view: IBaseViewModel): void;
1651
- setStickyViewHeaders(sticky: boolean): void;
1652
- afterAttach(): void;
1653
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
1654
- export type SessionWithMultipleViewsType = ReturnType<typeof MultipleViewsSessionMixin>;
1655
- export type SessionWithMultipleViews = Instance<SessionWithMultipleViewsType>;
1656
- export declare function isSessionWithMultipleViews(session: IAnyStateTreeNode): session is SessionWithMultipleViews;