@jbrowse/plugin-linear-genome-view 2.1.7 → 2.2.1

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (147) hide show
  1. package/dist/BaseLinearDisplay/components/LinearBlocks.d.ts +2 -2
  2. package/dist/BaseLinearDisplay/components/ServerSideRenderedBlockContent.js +2 -22
  3. package/dist/BaseLinearDisplay/components/ServerSideRenderedBlockContent.js.map +1 -1
  4. package/dist/BaseLinearDisplay/components/Tooltip.d.ts +1 -1
  5. package/dist/BaseLinearDisplay/models/BaseLinearDisplayModel.d.ts +149 -4
  6. package/dist/BaseLinearDisplay/models/BaseLinearDisplayModel.js +600 -464
  7. package/dist/BaseLinearDisplay/models/BaseLinearDisplayModel.js.map +1 -1
  8. package/dist/BaseLinearDisplay/models/baseLinearDisplayConfigSchema.js +19 -1
  9. package/dist/BaseLinearDisplay/models/baseLinearDisplayConfigSchema.js.map +1 -1
  10. package/dist/BaseLinearDisplay/models/serverSideRenderedBlock.d.ts +2 -2
  11. package/dist/BasicTrack/configSchema.d.ts +3 -0
  12. package/dist/BasicTrack/configSchema.js +18 -0
  13. package/dist/BasicTrack/configSchema.js.map +1 -0
  14. package/dist/BasicTrack/index.d.ts +3 -0
  15. package/dist/BasicTrack/index.js +18 -0
  16. package/dist/BasicTrack/index.js.map +1 -0
  17. package/dist/FeatureTrack/configSchema.d.ts +3 -0
  18. package/dist/FeatureTrack/configSchema.js +21 -0
  19. package/dist/FeatureTrack/configSchema.js.map +1 -0
  20. package/dist/FeatureTrack/index.d.ts +3 -0
  21. package/dist/FeatureTrack/index.js +18 -0
  22. package/dist/FeatureTrack/index.js.map +1 -0
  23. package/dist/LinearBareDisplay/configSchema.d.ts +5 -1
  24. package/dist/LinearBareDisplay/configSchema.js +12 -1
  25. package/dist/LinearBareDisplay/configSchema.js.map +1 -1
  26. package/dist/LinearBareDisplay/model.d.ts +16 -0
  27. package/dist/LinearBareDisplay/model.js +16 -0
  28. package/dist/LinearBareDisplay/model.js.map +1 -1
  29. package/dist/LinearBasicDisplay/configSchema.d.ts +5 -1
  30. package/dist/LinearBasicDisplay/configSchema.js +16 -1
  31. package/dist/LinearBasicDisplay/configSchema.js.map +1 -1
  32. package/dist/LinearBasicDisplay/model.d.ts +79 -8
  33. package/dist/LinearBasicDisplay/model.js +167 -111
  34. package/dist/LinearBasicDisplay/model.js.map +1 -1
  35. package/dist/LinearGenomeView/components/CenterLine.d.ts +1 -1
  36. package/dist/LinearGenomeView/components/GetSequenceDialog.d.ts +1 -1
  37. package/dist/LinearGenomeView/components/Gridlines.d.ts +1 -1
  38. package/dist/LinearGenomeView/components/Header.d.ts +1 -1
  39. package/dist/LinearGenomeView/components/ImportForm.d.ts +1 -1
  40. package/dist/LinearGenomeView/components/ImportForm.js +38 -31
  41. package/dist/LinearGenomeView/components/ImportForm.js.map +1 -1
  42. package/dist/LinearGenomeView/components/LinearGenomeView.d.ts +1 -1
  43. package/dist/LinearGenomeView/components/LinearGenomeView.js +2 -24
  44. package/dist/LinearGenomeView/components/LinearGenomeView.js.map +1 -1
  45. package/dist/LinearGenomeView/components/LinearGenomeViewSvg.d.ts +1 -1
  46. package/dist/LinearGenomeView/components/LinearGenomeViewSvg.js +7 -5
  47. package/dist/LinearGenomeView/components/LinearGenomeViewSvg.js.map +1 -1
  48. package/dist/LinearGenomeView/components/OverviewRubberBand.d.ts +1 -1
  49. package/dist/LinearGenomeView/components/OverviewScaleBar.d.ts +27 -35
  50. package/dist/LinearGenomeView/components/RubberBand.d.ts +1 -1
  51. package/dist/LinearGenomeView/components/ScaleBar.d.ts +1 -1
  52. package/dist/LinearGenomeView/components/TrackContainer.d.ts +1 -1
  53. package/dist/LinearGenomeView/components/TrackContainer.js +12 -9
  54. package/dist/LinearGenomeView/components/TrackContainer.js.map +1 -1
  55. package/dist/LinearGenomeView/components/TrackLabel.js +9 -1
  56. package/dist/LinearGenomeView/components/TrackLabel.js.map +1 -1
  57. package/dist/LinearGenomeView/components/TracksContainer.d.ts +1 -1
  58. package/dist/LinearGenomeView/index.d.ts +273 -18
  59. package/dist/LinearGenomeView/index.js +409 -90
  60. package/dist/LinearGenomeView/index.js.map +1 -1
  61. package/dist/index.d.ts +30 -90
  62. package/dist/index.js +4 -25
  63. package/dist/index.js.map +1 -1
  64. package/esm/BaseLinearDisplay/components/LinearBlocks.d.ts +2 -2
  65. package/esm/BaseLinearDisplay/components/ServerSideRenderedBlockContent.js +2 -22
  66. package/esm/BaseLinearDisplay/components/ServerSideRenderedBlockContent.js.map +1 -1
  67. package/esm/BaseLinearDisplay/components/Tooltip.d.ts +1 -1
  68. package/esm/BaseLinearDisplay/models/BaseLinearDisplayModel.d.ts +149 -4
  69. package/esm/BaseLinearDisplay/models/BaseLinearDisplayModel.js +600 -464
  70. package/esm/BaseLinearDisplay/models/BaseLinearDisplayModel.js.map +1 -1
  71. package/esm/BaseLinearDisplay/models/baseLinearDisplayConfigSchema.js +19 -1
  72. package/esm/BaseLinearDisplay/models/baseLinearDisplayConfigSchema.js.map +1 -1
  73. package/esm/BaseLinearDisplay/models/serverSideRenderedBlock.d.ts +2 -2
  74. package/esm/BasicTrack/configSchema.d.ts +3 -0
  75. package/esm/BasicTrack/configSchema.js +16 -0
  76. package/esm/BasicTrack/configSchema.js.map +1 -0
  77. package/esm/BasicTrack/index.d.ts +3 -0
  78. package/esm/BasicTrack/index.js +13 -0
  79. package/esm/BasicTrack/index.js.map +1 -0
  80. package/esm/FeatureTrack/configSchema.d.ts +3 -0
  81. package/esm/FeatureTrack/configSchema.js +19 -0
  82. package/esm/FeatureTrack/configSchema.js.map +1 -0
  83. package/esm/FeatureTrack/index.d.ts +3 -0
  84. package/esm/FeatureTrack/index.js +13 -0
  85. package/esm/FeatureTrack/index.js.map +1 -0
  86. package/esm/LinearBareDisplay/configSchema.d.ts +5 -1
  87. package/esm/LinearBareDisplay/configSchema.js +14 -2
  88. package/esm/LinearBareDisplay/configSchema.js.map +1 -1
  89. package/esm/LinearBareDisplay/model.d.ts +16 -0
  90. package/esm/LinearBareDisplay/model.js +16 -0
  91. package/esm/LinearBareDisplay/model.js.map +1 -1
  92. package/esm/LinearBasicDisplay/configSchema.d.ts +5 -1
  93. package/esm/LinearBasicDisplay/configSchema.js +18 -2
  94. package/esm/LinearBasicDisplay/configSchema.js.map +1 -1
  95. package/esm/LinearBasicDisplay/model.d.ts +79 -8
  96. package/esm/LinearBasicDisplay/model.js +167 -111
  97. package/esm/LinearBasicDisplay/model.js.map +1 -1
  98. package/esm/LinearGenomeView/components/CenterLine.d.ts +1 -1
  99. package/esm/LinearGenomeView/components/GetSequenceDialog.d.ts +1 -1
  100. package/esm/LinearGenomeView/components/Gridlines.d.ts +1 -1
  101. package/esm/LinearGenomeView/components/Header.d.ts +1 -1
  102. package/esm/LinearGenomeView/components/ImportForm.d.ts +1 -1
  103. package/esm/LinearGenomeView/components/ImportForm.js +40 -33
  104. package/esm/LinearGenomeView/components/ImportForm.js.map +1 -1
  105. package/esm/LinearGenomeView/components/LinearGenomeView.d.ts +1 -1
  106. package/esm/LinearGenomeView/components/LinearGenomeView.js +3 -25
  107. package/esm/LinearGenomeView/components/LinearGenomeView.js.map +1 -1
  108. package/esm/LinearGenomeView/components/LinearGenomeViewSvg.d.ts +1 -1
  109. package/esm/LinearGenomeView/components/LinearGenomeViewSvg.js +7 -5
  110. package/esm/LinearGenomeView/components/LinearGenomeViewSvg.js.map +1 -1
  111. package/esm/LinearGenomeView/components/OverviewRubberBand.d.ts +1 -1
  112. package/esm/LinearGenomeView/components/OverviewScaleBar.d.ts +27 -35
  113. package/esm/LinearGenomeView/components/RubberBand.d.ts +1 -1
  114. package/esm/LinearGenomeView/components/ScaleBar.d.ts +1 -1
  115. package/esm/LinearGenomeView/components/TrackContainer.d.ts +1 -1
  116. package/esm/LinearGenomeView/components/TrackContainer.js +13 -10
  117. package/esm/LinearGenomeView/components/TrackContainer.js.map +1 -1
  118. package/esm/LinearGenomeView/components/TrackLabel.js +9 -1
  119. package/esm/LinearGenomeView/components/TrackLabel.js.map +1 -1
  120. package/esm/LinearGenomeView/components/TracksContainer.d.ts +1 -1
  121. package/esm/LinearGenomeView/index.d.ts +273 -18
  122. package/esm/LinearGenomeView/index.js +409 -90
  123. package/esm/LinearGenomeView/index.js.map +1 -1
  124. package/esm/index.d.ts +30 -90
  125. package/esm/index.js +4 -25
  126. package/esm/index.js.map +1 -1
  127. package/package.json +2 -2
  128. package/src/BaseLinearDisplay/components/ServerSideRenderedBlockContent.tsx +2 -24
  129. package/src/BaseLinearDisplay/models/BaseLinearDisplayModel.tsx +695 -555
  130. package/src/BaseLinearDisplay/models/baseLinearDisplayConfigSchema.ts +20 -1
  131. package/src/BasicTrack/configSchema.ts +23 -0
  132. package/src/BasicTrack/index.ts +18 -0
  133. package/src/FeatureTrack/configSchema.ts +27 -0
  134. package/src/FeatureTrack/index.ts +21 -0
  135. package/src/LinearBareDisplay/configSchema.ts +15 -2
  136. package/src/LinearBareDisplay/model.ts +16 -0
  137. package/src/LinearBasicDisplay/configSchema.ts +19 -2
  138. package/src/LinearBasicDisplay/model.ts +63 -11
  139. package/src/LinearGenomeView/components/ImportForm.tsx +85 -67
  140. package/src/LinearGenomeView/components/LinearGenomeView.tsx +3 -33
  141. package/src/LinearGenomeView/components/LinearGenomeViewSvg.tsx +21 -18
  142. package/src/LinearGenomeView/components/TrackContainer.tsx +38 -27
  143. package/src/LinearGenomeView/components/TrackLabel.tsx +10 -1
  144. package/src/LinearGenomeView/components/__snapshots__/LinearGenomeView.test.tsx.snap +204 -204
  145. package/src/LinearGenomeView/index.test.ts +33 -26
  146. package/src/LinearGenomeView/index.tsx +471 -133
  147. package/src/index.ts +6 -46
package/esm/LinearGenomeView/index.js.map CHANGED
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package/esm/index.d.ts CHANGED
@@ -611,7 +611,8 @@ export default class LinearGenomeViewPlugin extends Plugin {
611
611
  model: {
612
612
  id: string;
613
613
  displayName: string | undefined;
614
- type: "LinearGenomeView";
614
+ minimized: boolean;
615
+ type: string;
615
616
  offsetPx: number;
616
617
  bpPerPx: number;
617
618
  displayedRegions: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IModelType<{
@@ -649,6 +650,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
649
650
  } & {
650
651
  setDisplayName(name: string): void;
651
652
  setWidth(newWidth: number): void;
653
+ setMinimized(flag: boolean): void;
652
654
  } & {
653
655
  volatileWidth: number | undefined;
654
656
  minimumBlockWidth: number;
@@ -761,19 +763,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
761
763
  } & {
762
764
  readonly staticBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
763
765
  readonly dynamicBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
764
- readonly roundedDynamicBlocks: {
765
- start: number;
766
- end: number;
767
- regionNumber?: number | undefined;
768
- reversed?: boolean | undefined;
769
- refName: string;
770
- assemblyName: string;
771
- key: string;
772
- offsetPx: number;
773
- widthPx: number;
774
- variant?: string | undefined;
775
- isLeftEndOfDisplayedRegion?: boolean | undefined;
776
- }[];
766
+ readonly roundedDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
777
767
  readonly visibleLocStrings: string;
778
768
  readonly coarseVisibleLocStrings: string;
779
769
  } & {
@@ -781,7 +771,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
781
771
  afterAttach(): void;
782
772
  } & {
783
773
  moveTo(start?: import("./LinearGenomeView").BpOffset | undefined, end?: import("./LinearGenomeView").BpOffset | undefined): void;
784
- navToLocString(locString: string, optAssemblyName?: string | undefined): void;
774
+ navToLocString(locString: string, optAssemblyName?: string | undefined): Promise<void>;
785
775
  navTo(query: import("./LinearGenomeView").NavLocation): void;
786
776
  navToMultiple(locations: import("./LinearGenomeView").NavLocation[]): void;
787
777
  } & {
@@ -820,9 +810,10 @@ export default class LinearGenomeViewPlugin extends Plugin {
820
810
  } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
821
811
  id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
822
812
  displayName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
813
+ minimized: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
823
814
  } & {
824
815
  id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
825
- type: import("mobx-state-tree").ISimpleType<"LinearGenomeView">;
816
+ type: import("mobx-state-tree").IType<string | undefined, string, string>;
826
817
  offsetPx: import("mobx-state-tree").IType<number | undefined, number, number>;
827
818
  bpPerPx: import("mobx-state-tree").IType<number | undefined, number, number>;
828
819
  displayedRegions: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IModelType<{
@@ -851,6 +842,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
851
842
  } & {
852
843
  setDisplayName(name: string): void;
853
844
  setWidth(newWidth: number): void;
845
+ setMinimized(flag: boolean): void;
854
846
  } & {
855
847
  volatileWidth: number | undefined;
856
848
  minimumBlockWidth: number;
@@ -963,19 +955,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
963
955
  } & {
964
956
  readonly staticBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
965
957
  readonly dynamicBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
966
- readonly roundedDynamicBlocks: {
967
- start: number;
968
- end: number;
969
- regionNumber?: number | undefined;
970
- reversed?: boolean | undefined;
971
- refName: string;
972
- assemblyName: string;
973
- key: string;
974
- offsetPx: number;
975
- widthPx: number;
976
- variant?: string | undefined;
977
- isLeftEndOfDisplayedRegion?: boolean | undefined;
978
- }[];
958
+ readonly roundedDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
979
959
  readonly visibleLocStrings: string;
980
960
  readonly coarseVisibleLocStrings: string;
981
961
  } & {
@@ -983,7 +963,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
983
963
  afterAttach(): void;
984
964
  } & {
985
965
  moveTo(start?: import("./LinearGenomeView").BpOffset | undefined, end?: import("./LinearGenomeView").BpOffset | undefined): void;
986
- navToLocString(locString: string, optAssemblyName?: string | undefined): void;
966
+ navToLocString(locString: string, optAssemblyName?: string | undefined): Promise<void>;
987
967
  navTo(query: import("./LinearGenomeView").NavLocation): void;
988
968
  navToMultiple(locations: import("./LinearGenomeView").NavLocation[]): void;
989
969
  } & {
@@ -1025,7 +1005,8 @@ export default class LinearGenomeViewPlugin extends Plugin {
1025
1005
  model: {
1026
1006
  id: string;
1027
1007
  displayName: string | undefined;
1028
- type: "LinearGenomeView";
1008
+ minimized: boolean;
1009
+ type: string;
1029
1010
  offsetPx: number;
1030
1011
  bpPerPx: number;
1031
1012
  displayedRegions: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IModelType<{
@@ -1063,6 +1044,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
1063
1044
  } & {
1064
1045
  setDisplayName(name: string): void;
1065
1046
  setWidth(newWidth: number): void;
1047
+ setMinimized(flag: boolean): void;
1066
1048
  } & {
1067
1049
  volatileWidth: number | undefined;
1068
1050
  minimumBlockWidth: number;
@@ -1175,19 +1157,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
1175
1157
  } & {
1176
1158
  readonly staticBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
1177
1159
  readonly dynamicBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
1178
- readonly roundedDynamicBlocks: {
1179
- start: number;
1180
- end: number;
1181
- regionNumber?: number | undefined;
1182
- reversed?: boolean | undefined;
1183
- refName: string;
1184
- assemblyName: string;
1185
- key: string;
1186
- offsetPx: number;
1187
- widthPx: number;
1188
- variant?: string | undefined;
1189
- isLeftEndOfDisplayedRegion?: boolean | undefined;
1190
- }[];
1160
+ readonly roundedDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
1191
1161
  readonly visibleLocStrings: string;
1192
1162
  readonly coarseVisibleLocStrings: string;
1193
1163
  } & {
@@ -1195,7 +1165,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
1195
1165
  afterAttach(): void;
1196
1166
  } & {
1197
1167
  moveTo(start?: import("./LinearGenomeView").BpOffset | undefined, end?: import("./LinearGenomeView").BpOffset | undefined): void;
1198
- navToLocString(locString: string, optAssemblyName?: string | undefined): void;
1168
+ navToLocString(locString: string, optAssemblyName?: string | undefined): Promise<void>;
1199
1169
  navTo(query: import("./LinearGenomeView").NavLocation): void;
1200
1170
  navToMultiple(locations: import("./LinearGenomeView").NavLocation[]): void;
1201
1171
  } & {
@@ -1234,9 +1204,10 @@ export default class LinearGenomeViewPlugin extends Plugin {
1234
1204
  } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
1235
1205
  id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
1236
1206
  displayName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
1207
+ minimized: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
1237
1208
  } & {
1238
1209
  id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
1239
- type: import("mobx-state-tree").ISimpleType<"LinearGenomeView">;
1210
+ type: import("mobx-state-tree").IType<string | undefined, string, string>;
1240
1211
  offsetPx: import("mobx-state-tree").IType<number | undefined, number, number>;
1241
1212
  bpPerPx: import("mobx-state-tree").IType<number | undefined, number, number>;
1242
1213
  displayedRegions: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IModelType<{
@@ -1265,6 +1236,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
1265
1236
  } & {
1266
1237
  setDisplayName(name: string): void;
1267
1238
  setWidth(newWidth: number): void;
1239
+ setMinimized(flag: boolean): void;
1268
1240
  } & {
1269
1241
  volatileWidth: number | undefined;
1270
1242
  minimumBlockWidth: number;
@@ -1377,19 +1349,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
1377
1349
  } & {
1378
1350
  readonly staticBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
1379
1351
  readonly dynamicBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
1380
- readonly roundedDynamicBlocks: {
1381
- start: number;
1382
- end: number;
1383
- regionNumber?: number | undefined;
1384
- reversed?: boolean | undefined;
1385
- refName: string;
1386
- assemblyName: string;
1387
- key: string;
1388
- offsetPx: number;
1389
- widthPx: number;
1390
- variant?: string | undefined;
1391
- isLeftEndOfDisplayedRegion?: boolean | undefined;
1392
- }[];
1352
+ readonly roundedDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
1393
1353
  readonly visibleLocStrings: string;
1394
1354
  readonly coarseVisibleLocStrings: string;
1395
1355
  } & {
@@ -1397,7 +1357,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
1397
1357
  afterAttach(): void;
1398
1358
  } & {
1399
1359
  moveTo(start?: import("./LinearGenomeView").BpOffset | undefined, end?: import("./LinearGenomeView").BpOffset | undefined): void;
1400
- navToLocString(locString: string, optAssemblyName?: string | undefined): void;
1360
+ navToLocString(locString: string, optAssemblyName?: string | undefined): Promise<void>;
1401
1361
  navTo(query: import("./LinearGenomeView").NavLocation): void;
1402
1362
  navToMultiple(locations: import("./LinearGenomeView").NavLocation[]): void;
1403
1363
  } & {
@@ -1439,7 +1399,8 @@ export default class LinearGenomeViewPlugin extends Plugin {
1439
1399
  model: {
1440
1400
  id: string;
1441
1401
  displayName: string | undefined;
1442
- type: "LinearGenomeView";
1402
+ minimized: boolean;
1403
+ type: string;
1443
1404
  offsetPx: number;
1444
1405
  bpPerPx: number;
1445
1406
  displayedRegions: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IModelType<{
@@ -1477,6 +1438,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
1477
1438
  } & {
1478
1439
  setDisplayName(name: string): void;
1479
1440
  setWidth(newWidth: number): void;
1441
+ setMinimized(flag: boolean): void;
1480
1442
  } & {
1481
1443
  volatileWidth: number | undefined;
1482
1444
  minimumBlockWidth: number;
@@ -1589,19 +1551,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
1589
1551
  } & {
1590
1552
  readonly staticBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
1591
1553
  readonly dynamicBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
1592
- readonly roundedDynamicBlocks: {
1593
- start: number;
1594
- end: number;
1595
- regionNumber?: number | undefined;
1596
- reversed?: boolean | undefined;
1597
- refName: string;
1598
- assemblyName: string;
1599
- key: string;
1600
- offsetPx: number;
1601
- widthPx: number;
1602
- variant?: string | undefined;
1603
- isLeftEndOfDisplayedRegion?: boolean | undefined;
1604
- }[];
1554
+ readonly roundedDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
1605
1555
  readonly visibleLocStrings: string;
1606
1556
  readonly coarseVisibleLocStrings: string;
1607
1557
  } & {
@@ -1609,7 +1559,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
1609
1559
  afterAttach(): void;
1610
1560
  } & {
1611
1561
  moveTo(start?: import("./LinearGenomeView").BpOffset | undefined, end?: import("./LinearGenomeView").BpOffset | undefined): void;
1612
- navToLocString(locString: string, optAssemblyName?: string | undefined): void;
1562
+ navToLocString(locString: string, optAssemblyName?: string | undefined): Promise<void>;
1613
1563
  navTo(query: import("./LinearGenomeView").NavLocation): void;
1614
1564
  navToMultiple(locations: import("./LinearGenomeView").NavLocation[]): void;
1615
1565
  } & {
@@ -1648,9 +1598,10 @@ export default class LinearGenomeViewPlugin extends Plugin {
1648
1598
  } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
1649
1599
  id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
1650
1600
  displayName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
1601
+ minimized: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
1651
1602
  } & {
1652
1603
  id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
1653
- type: import("mobx-state-tree").ISimpleType<"LinearGenomeView">;
1604
+ type: import("mobx-state-tree").IType<string | undefined, string, string>;
1654
1605
  offsetPx: import("mobx-state-tree").IType<number | undefined, number, number>;
1655
1606
  bpPerPx: import("mobx-state-tree").IType<number | undefined, number, number>;
1656
1607
  displayedRegions: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IModelType<{
@@ -1679,6 +1630,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
1679
1630
  } & {
1680
1631
  setDisplayName(name: string): void;
1681
1632
  setWidth(newWidth: number): void;
1633
+ setMinimized(flag: boolean): void;
1682
1634
  } & {
1683
1635
  volatileWidth: number | undefined;
1684
1636
  minimumBlockWidth: number;
@@ -1791,19 +1743,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
1791
1743
  } & {
1792
1744
  readonly staticBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
1793
1745
  readonly dynamicBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
1794
- readonly roundedDynamicBlocks: {
1795
- start: number;
1796
- end: number;
1797
- regionNumber?: number | undefined;
1798
- reversed?: boolean | undefined;
1799
- refName: string;
1800
- assemblyName: string;
1801
- key: string;
1802
- offsetPx: number;
1803
- widthPx: number;
1804
- variant?: string | undefined;
1805
- isLeftEndOfDisplayedRegion?: boolean | undefined;
1806
- }[];
1746
+ readonly roundedDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
1807
1747
  readonly visibleLocStrings: string;
1808
1748
  readonly coarseVisibleLocStrings: string;
1809
1749
  } & {
@@ -1811,7 +1751,7 @@ export default class LinearGenomeViewPlugin extends Plugin {
1811
1751
  afterAttach(): void;
1812
1752
  } & {
1813
1753
  moveTo(start?: import("./LinearGenomeView").BpOffset | undefined, end?: import("./LinearGenomeView").BpOffset | undefined): void;
1814
- navToLocString(locString: string, optAssemblyName?: string | undefined): void;
1754
+ navToLocString(locString: string, optAssemblyName?: string | undefined): Promise<void>;
1815
1755
  navTo(query: import("./LinearGenomeView").NavLocation): void;
1816
1756
  navToMultiple(locations: import("./LinearGenomeView").NavLocation[]): void;
1817
1757
  } & {
package/esm/index.js CHANGED
@@ -1,8 +1,5 @@
1
1
  import { lazy } from 'react';
2
2
  import { when } from 'mobx';
3
- import { ConfigurationSchema } from '@jbrowse/core/configuration';
4
- import { createBaseTrackConfig, createBaseTrackModel, } from '@jbrowse/core/pluggableElementTypes/models';
5
- import TrackType from '@jbrowse/core/pluggableElementTypes/TrackType';
6
3
  import DisplayType from '@jbrowse/core/pluggableElementTypes/DisplayType';
7
4
  import ViewType from '@jbrowse/core/pluggableElementTypes/ViewType';
8
5
  import Plugin from '@jbrowse/core/Plugin';
@@ -12,6 +9,8 @@ import { BaseLinearDisplay, BaseLinearDisplayComponent, baseLinearDisplayConfigS
12
9
  import { configSchemaFactory as linearBareDisplayConfigSchemaFactory, stateModelFactory as LinearBareDisplayStateModelFactory, } from './LinearBareDisplay';
13
10
  import { stateModelFactory as linearGenomeViewStateModelFactory, renderToSvg, RefNameAutocomplete, SearchBox, ZoomControls, LinearGenomeView, } from './LinearGenomeView';
14
11
  import { configSchema as linearBasicDisplayConfigSchemaFactory, modelFactory as linearBasicDisplayModelFactory, } from './LinearBasicDisplay';
12
+ import FeatureTrackF from './FeatureTrack';
13
+ import BasicTrackF from './BasicTrack';
15
14
  export default class LinearGenomeViewPlugin extends Plugin {
16
15
  constructor() {
17
16
  super(...arguments);
@@ -26,28 +25,8 @@ export default class LinearGenomeViewPlugin extends Plugin {
26
25
  };
27
26
  }
28
27
  install(pluginManager) {
29
- pluginManager.addTrackType(() => {
30
- const configSchema = ConfigurationSchema('FeatureTrack', {}, {
31
- baseConfiguration: createBaseTrackConfig(pluginManager),
32
- explicitIdentifier: 'trackId',
33
- });
34
- return new TrackType({
35
- name: 'FeatureTrack',
36
- configSchema,
37
- stateModel: createBaseTrackModel(pluginManager, 'FeatureTrack', configSchema),
38
- });
39
- });
40
- pluginManager.addTrackType(() => {
41
- const configSchema = ConfigurationSchema('BasicTrack', {}, {
42
- baseConfiguration: createBaseTrackConfig(pluginManager),
43
- explicitIdentifier: 'trackId',
44
- });
45
- return new TrackType({
46
- name: 'BasicTrack',
47
- configSchema,
48
- stateModel: createBaseTrackModel(pluginManager, 'BasicTrack', configSchema),
49
- });
50
- });
28
+ FeatureTrackF(pluginManager);
29
+ BasicTrackF(pluginManager);
51
30
  pluginManager.addDisplayType(() => {
52
31
  const configSchema = linearBareDisplayConfigSchemaFactory(pluginManager);
53
32
  return new DisplayType({
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@@ -1 +1 @@
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1
+ {"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,IAAI,EAAE,MAAM,OAAO,CAAA;AAC5B,OAAO,EAAE,IAAI,EAAE,MAAM,MAAM,CAAA;AAE3B,OAAO,WAAW,MAAM,iDAAiD,CAAA;AACzE,OAAO,QAAQ,MAAM,8CAA8C,CAAA;AACnE,OAAO,MAAM,MAAM,sBAAsB,CAAA;AAEzC,OAAO,EAAwB,qBAAqB,EAAE,MAAM,oBAAoB,CAAA;AAChF,OAAO,aAAa,MAAM,+BAA+B,CAAA;AACzD,OAAO,EACL,iBAAiB,EACjB,0BAA0B,EAC1B,6BAA6B,GAE9B,MAAM,qBAAqB,CAAA;AAC5B,OAAO,EACL,mBAAmB,IAAI,oCAAoC,EAC3D,iBAAiB,IAAI,kCAAkC,GACxD,MAAM,qBAAqB,CAAA;AAC5B,OAAO,EAGL,iBAAiB,IAAI,iCAAiC,EACtD,WAAW,EACX,mBAAmB,EACnB,SAAS,EACT,YAAY,EACZ,gBAAgB,GACjB,MAAM,oBAAoB,CAAA;AAE3B,OAAO,EACL,YAAY,IAAI,qCAAqC,EACrD,YAAY,IAAI,8BAA8B,GAC/C,MAAM,sBAAsB,CAAA;AAE7B,OAAO,aAAa,MAAM,gBAAgB,CAAA;AAC1C,OAAO,WAAW,MAAM,cAAc,CAAA;AAItC,MAAM,CAAC,OAAO,OAAO,sBAAuB,SAAQ,MAAM;IAA1D;;QACE,SAAI,GAAG,wBAAwB,CAAA;QAE/B,YAAO,GAAG;YACR,0BAA0B;YAC1B,iBAAiB;YACjB,6BAA6B;YAC7B,SAAS;YACT,YAAY;YACZ,gBAAgB;SACjB,CAAA;IA+GH,CAAC;IA7GC,OAAO,CAAC,aAA4B;QAClC,aAAa,CAAC,aAAa,CAAC,CAAA;QAC5B,WAAW,CAAC,aAAa,CAAC,CAAA;QAC1B,aAAa,CAAC,cAAc,CAAC,GAAG,EAAE;YAChC,MAAM,YAAY,GAAG,oCAAoC,CAAC,aAAa,CAAC,CAAA;YACxE,OAAO,IAAI,WAAW,CAAC;gBACrB,IAAI,EAAE,mBAAmB;gBACzB,YAAY;gBACZ,UAAU,EAAE,kCAAkC,CAAC,YAAY,CAAC;gBAC5D,SAAS,EAAE,YAAY;gBACvB,QAAQ,EAAE,kBAAkB;gBAC5B,cAAc,EAAE,0BAA0B;aAC3C,CAAC,CAAA;QACJ,CAAC,CAAC,CAAA;QAEF,aAAa,CAAC,cAAc,CAAC,GAAG,EAAE;YAChC,MAAM,YAAY,GAAG,qCAAqC,CAAC,aAAa,CAAC,CAAA;YACzE,OAAO,IAAI,WAAW,CAAC;gBACrB,IAAI,EAAE,oBAAoB;gBAC1B,YAAY;gBACZ,UAAU,EAAE,8BAA8B,CAAC,YAAY,CAAC;gBACxD,SAAS,EAAE,cAAc;gBACzB,QAAQ,EAAE,kBAAkB;gBAC5B,cAAc,EAAE,0BAA0B;aAC3C,CAAC,CAAA;QACJ,CAAC,CAAC,CAAA;QAEF,aAAa,CAAC,WAAW,CACvB,GAAG,EAAE,CACH,IAAI,QAAQ,CAAC;YACX,IAAI,EAAE,kBAAkB;YACxB,UAAU,EAAE,iCAAiC,CAAC,aAAa,CAAC;YAC5D,cAAc,EAAE,IAAI,CAClB,GAAG,EAAE,CAAC,MAAM,CAAC,gDAAgD,CAAC,CAC/D;SACF,CAAC,CACL,CAAA;QAED,aAAa,CAAC,mBAAmB,CAC/B,6BAA6B;QAC7B,aAAa;QACb,KAAK,EAAE,EACL,OAAO,EACP,QAAQ,EACR,GAAG,EACH,MAAM,GAAG,EAAE,GAMZ,EAAE,EAAE;YACH,IAAI;gBACF,MAAM,EAAE,eAAe,EAAE,GAAG,OAAO,CAAA;gBACnC,MAAM,IAAI,GAAG,OAAO,CAAC,OAAO,CAAC,kBAAkB,EAAE,EAAE,CAAQ,CAAA;gBAE3D,MAAM,IAAI,CAAC,GAAG,EAAE,CAAC,CAAC,CAAC,IAAI,CAAC,aAAa,CAAC,CAAA;gBAEtC,IAAI,CAAC,QAAQ,EAAE;oBACb,MAAM,IAAI,KAAK,CACb,wDAAwD,CACzD,CAAA;iBACF;gBAED,MAAM,GAAG,GAAG,MAAM,eAAe,CAAC,eAAe,CAAC,QAAQ,CAAC,CAAA;gBAC3D,IAAI,CAAC,GAAG,EAAE;oBACR,MAAM,IAAI,KAAK,CACb,aAAa,QAAQ,+CAA+C,CACrE,CAAA;iBACF;gBAED,IAAI,CAAC,cAAc,CAAC,GAAG,EAAE,QAAQ,CAAC,CAAA;gBAElC,MAAM,WAAW,GAAG,EAAc,CAAA;gBAClC,MAAM,CAAC,OAAO,CAAC,KAAK,CAAC,EAAE;oBACrB,IAAI;wBACF,IAAI,CAAC,SAAS,CAAC,KAAK,CAAC,CAAA;qBACtB;oBAAC,OAAO,CAAC,EAAE;wBACV,IAAI,GAAG,CAAC,EAAE,CAAC,KAAK,CAAC,8BAA8B,CAAC,EAAE;4BAChD,WAAW,CAAC,IAAI,CAAC,KAAK,CAAC,CAAA;yBACxB;6BAAM;4BACL,MAAM,CAAC,CAAA;yBACR;qBACF;gBACH,CAAC,CAAC,CAAA;gBACF,IAAI,WAAW,CAAC,MAAM,EAAE;oBACtB,MAAM,IAAI,KAAK,CACb,kCAAkC,WAAW,CAAC,IAAI,CAAC,GAAG,CAAC,EAAE,CAC1D,CAAA;iBACF;aACF;YAAC,OAAO,CAAC,EAAE;gBACV,OAAO,CAAC,MAAM,CAAC,GAAG,CAAC,EAAE,EAAE,OAAO,CAAC,CAAA;gBAC/B,MAAM,CAAC,CAAA;aACR;QACH,CAAC,CACF,CAAA;IACH,CAAC;IAED,SAAS,CAAC,aAA4B;QACpC,IAAI,qBAAqB,CAAC,aAAa,CAAC,SAAS,CAAC,EAAE;YAClD,aAAa,CAAC,SAAS,CAAC,eAAe,CAAC,CAAC,KAAK,CAAC,EAAE;gBAC/C,KAAK,EAAE,oBAAoB;gBAC3B,IAAI,EAAE,aAAa;gBACnB,OAAO,EAAE,CAAC,OAA6B,EAAE,EAAE;oBACzC,OAAO,CAAC,OAAO,CAAC,kBAAkB,EAAE,EAAE,CAAC,CAAA;gBACzC,CAAC;aACF,CAAC,CAAA;SACH;IACH,CAAC;CACF;AAED,OAAO,EACL,6BAA6B,EAC7B,oCAAoC,EACpC,qCAAqC,EACrC,8BAA8B,EAC9B,WAAW,EACX,0BAA0B,EAC1B,iBAAiB,EACjB,mBAAmB,EACnB,SAAS,GACV,CAAA"}
package/package.json CHANGED
@@ -1,6 +1,6 @@
1
1
  {
2
2
  "name": "@jbrowse/plugin-linear-genome-view",
3
- "version": "2.1.7",
3
+ "version": "2.2.1",
4
4
  "description": "JBrowse 2 linear genome view",
5
5
  "keywords": [
6
6
  "jbrowse",
@@ -65,5 +65,5 @@
65
65
  "access": "public"
66
66
  },
67
67
  "module": "esm/index.js",
68
- "gitHead": "a1344081f61e22e0f597517efa7386023eef9f33"
68
+ "gitHead": "896d175c5d9345049faea8e1155f243c912aac42"
69
69
  }
package/src/BaseLinearDisplay/components/ServerSideRenderedBlockContent.tsx CHANGED
@@ -1,8 +1,8 @@
1
1
  import React, { useEffect, useState } from 'react'
2
- import { Typography } from '@mui/material'
3
2
  import { makeStyles } from 'tss-react/mui'
4
3
  import { observer } from 'mobx-react'
5
4
  import { getParent } from 'mobx-state-tree'
5
+ import { LoadingEllipses } from '@jbrowse/core/ui'
6
6
  import RefreshIcon from '@mui/icons-material/Refresh'
7
7
 
8
8
  import BlockMsg from './BlockMsg'
@@ -18,26 +18,6 @@ const useStyles = makeStyles()(theme => ({
18
18
  pointerEvents: 'none',
19
19
  textAlign: 'center',
20
20
  },
21
- dots: {
22
- '&::after': {
23
- display: 'inline-block',
24
- animation: '$ellipsis 1.5s infinite',
25
- content: '"."',
26
- width: '1em',
27
- textAlign: 'left',
28
- },
29
- },
30
- '@keyframes ellipsis': {
31
- '0%': {
32
- content: '"."',
33
- },
34
- '33%': {
35
- content: '".."',
36
- },
37
- '66%': {
38
- content: '"..."',
39
- },
40
- },
41
21
  }))
42
22
 
43
23
  // eslint-disable-next-line @typescript-eslint/no-explicit-any
@@ -66,9 +46,7 @@ const LoadingMessage = observer(({ model }: { model: any }) => {
66
46
  <>
67
47
  {shown ? (
68
48
  <div className={classes.loading}>
69
- <Typography className={classes.dots} variant="body2">
70
- {status ? `${status}` : 'Loading'}
71
- </Typography>
49
+ <LoadingEllipses message={status} />
72
50
  </div>
73
51
  ) : null}
74
52
  </>