@jbrowse/plugin-alignments 1.7.0 → 1.7.1

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Files changed (63) hide show
  1. package/dist/AlignmentsFeatureDetail/AlignmentsFeatureDetail.d.ts +6 -6
  2. package/dist/AlignmentsFeatureDetail/index.d.ts +13 -13
  3. package/dist/AlignmentsTrack/index.d.ts +2 -2
  4. package/dist/BamAdapter/BamAdapter.d.ts +40 -30
  5. package/dist/BamAdapter/BamSlightlyLazyFeature.d.ts +33 -33
  6. package/dist/BamAdapter/MismatchParser.d.ts +28 -28
  7. package/dist/BamAdapter/configSchema.d.ts +2 -2
  8. package/dist/BamAdapter/index.d.ts +3 -3
  9. package/dist/CramAdapter/CramAdapter.d.ts +52 -43
  10. package/dist/CramAdapter/CramSlightlyLazyFeature.d.ts +49 -49
  11. package/dist/CramAdapter/CramTestAdapters.d.ts +29 -29
  12. package/dist/CramAdapter/configSchema.d.ts +3 -3
  13. package/dist/CramAdapter/index.d.ts +3 -3
  14. package/dist/HtsgetBamAdapter/HtsgetBamAdapter.d.ts +9 -9
  15. package/dist/HtsgetBamAdapter/configSchema.d.ts +2 -2
  16. package/dist/HtsgetBamAdapter/index.d.ts +3 -3
  17. package/dist/LinearAlignmentsDisplay/components/AlignmentsDisplay.d.ts +7 -7
  18. package/dist/LinearAlignmentsDisplay/index.d.ts +2 -2
  19. package/dist/LinearAlignmentsDisplay/models/configSchema.d.ts +4 -4
  20. package/dist/LinearAlignmentsDisplay/models/model.d.ts +105 -105
  21. package/dist/LinearPileupDisplay/components/ColorByModifications.d.ts +14 -14
  22. package/dist/LinearPileupDisplay/components/ColorByTag.d.ts +9 -9
  23. package/dist/LinearPileupDisplay/components/FilterByTag.d.ts +18 -18
  24. package/dist/LinearPileupDisplay/components/LinearPileupDisplayBlurb.d.ts +13 -13
  25. package/dist/LinearPileupDisplay/components/SetFeatureHeight.d.ts +16 -16
  26. package/dist/LinearPileupDisplay/components/SetMaxHeight.d.ts +10 -10
  27. package/dist/LinearPileupDisplay/components/SortByTag.d.ts +9 -9
  28. package/dist/LinearPileupDisplay/configSchema.d.ts +6 -6
  29. package/dist/LinearPileupDisplay/index.d.ts +2 -2
  30. package/dist/LinearPileupDisplay/model.d.ts +319 -321
  31. package/dist/LinearSNPCoverageDisplay/components/Tooltip.d.ts +10 -10
  32. package/dist/LinearSNPCoverageDisplay/index.d.ts +2 -2
  33. package/dist/LinearSNPCoverageDisplay/models/configSchema.d.ts +2 -2
  34. package/dist/LinearSNPCoverageDisplay/models/model.d.ts +346 -96
  35. package/dist/NestedFrequencyTable.d.ts +14 -14
  36. package/dist/PileupRPC/rpcMethods.d.ts +34 -34
  37. package/dist/PileupRenderer/PileupLayoutSession.d.ts +29 -29
  38. package/dist/PileupRenderer/PileupRenderer.d.ts +125 -125
  39. package/dist/PileupRenderer/components/PileupRendering.d.ts +23 -23
  40. package/dist/PileupRenderer/configSchema.d.ts +2 -2
  41. package/dist/PileupRenderer/index.d.ts +2 -2
  42. package/dist/PileupRenderer/sortUtil.d.ts +8 -8
  43. package/dist/SNPCoverageAdapter/SNPCoverageAdapter.d.ts +67 -71
  44. package/dist/SNPCoverageAdapter/configSchema.d.ts +3 -3
  45. package/dist/SNPCoverageAdapter/index.d.ts +3 -3
  46. package/dist/SNPCoverageRenderer/SNPCoverageRenderer.d.ts +20 -20
  47. package/dist/SNPCoverageRenderer/configSchema.d.ts +2 -2
  48. package/dist/SNPCoverageRenderer/index.d.ts +3 -3
  49. package/dist/index.d.ts +10 -10
  50. package/dist/shared.d.ts +25 -25
  51. package/dist/util.d.ts +19 -19
  52. package/package.json +3 -2
  53. package/dist/AlignmentsFeatureDetail/index.test.d.ts +0 -1
  54. package/dist/LinearAlignmentsDisplay/models/configSchema.test.d.ts +0 -1
  55. package/dist/LinearPileupDisplay/configSchema.test.d.ts +0 -1
  56. package/dist/LinearSNPCoverageDisplay/models/configSchema.test.d.ts +0 -1
  57. package/dist/PileupRenderer/components/PileupRendering.test.d.ts +0 -1
  58. package/dist/plugin-alignments.cjs.development.js +0 -8438
  59. package/dist/plugin-alignments.cjs.development.js.map +0 -1
  60. package/dist/plugin-alignments.cjs.production.min.js +0 -2
  61. package/dist/plugin-alignments.cjs.production.min.js.map +0 -1
  62. package/dist/plugin-alignments.esm.js +0 -8430
  63. package/dist/plugin-alignments.esm.js.map +0 -1
package/dist/util.d.ts CHANGED
@@ -1,19 +1,19 @@
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- import { BaseFeatureDataAdapter } from '@jbrowse/core/data_adapters/BaseAdapter';
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- import { Feature } from '@jbrowse/core/util/simpleFeature';
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- import { AugmentedRegion } from '@jbrowse/core/util';
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- export declare function getTag(feature: Feature, tag: string): any;
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- export declare function getTagAlt(feature: Feature, tag: string, alt: string): any;
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- export declare const orientationTypes: {
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- fr: {
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- [key: string]: string;
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- };
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- rf: {
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- [key: string]: string;
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- };
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- ff: {
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- [key: string]: string;
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- };
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- };
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- export declare function getColorWGBS(strand: number, base: string): "#f00" | "#00f" | "#888";
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- export declare function fetchSequence(region: AugmentedRegion, adapter: BaseFeatureDataAdapter): Promise<any>;
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- export declare function shouldFetchReferenceSequence(type?: string): boolean;
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+ import { BaseFeatureDataAdapter } from '@jbrowse/core/data_adapters/BaseAdapter';
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+ import { Feature } from '@jbrowse/core/util/simpleFeature';
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+ import { AugmentedRegion } from '@jbrowse/core/util';
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+ export declare function getTag(feature: Feature, tag: string): any;
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+ export declare function getTagAlt(feature: Feature, tag: string, alt: string): any;
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+ export declare const orientationTypes: {
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+ fr: {
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+ [key: string]: string;
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+ };
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+ rf: {
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+ [key: string]: string;
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+ };
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+ ff: {
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+ [key: string]: string;
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+ };
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+ };
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+ export declare function getColorWGBS(strand: number, base: string): "#f00" | "#00f" | "#888";
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+ export declare function fetchSequence(region: AugmentedRegion, adapter: BaseFeatureDataAdapter): Promise<any>;
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+ export declare function shouldFetchReferenceSequence(type?: string): boolean;
package/package.json CHANGED
@@ -1,6 +1,6 @@
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  {
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  "name": "@jbrowse/plugin-alignments",
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- "version": "1.7.0",
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+ "version": "1.7.1",
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  "description": "JBrowse 2 alignments adapters, tracks, etc.",
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  "keywords": [
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  "jbrowse",
@@ -24,6 +24,7 @@
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  ],
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  "scripts": {
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  "build": "babel src --root-mode upward --out-dir dist --extensions .ts,.js,.tsx,.jsx",
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+ "postbuild": "tsc --build tsconfig.build.json",
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  "test": "cd ../..; jest plugins/alignments",
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  "prepublishOnly": "yarn test",
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  "prepack": "yarn build; yarn useDist",
@@ -57,5 +58,5 @@
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  "publishConfig": {
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  "access": "public"
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  },
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- "gitHead": "cc13844074d11881d211342a6a7eea113561b70b"
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+ "gitHead": "6da232090c90f22ac96fd464c33082c89b8da14b"
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  }
package/dist/AlignmentsFeatureDetail/index.test.d.ts DELETED
@@ -1 +0,0 @@
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- export {};
package/dist/LinearPileupDisplay/configSchema.test.d.ts DELETED
@@ -1 +0,0 @@
1
- export {};