@jbrowse/plugin-alignments 2.3.3 → 2.4.0

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Files changed (43) hide show
  1. package/dist/LinearAlignmentsDisplay/models/configSchema.js +7 -0
  2. package/dist/LinearAlignmentsDisplay/models/configSchema.js.map +1 -1
  3. package/dist/LinearAlignmentsDisplay/models/model.d.ts +24 -6
  4. package/dist/LinearAlignmentsDisplay/models/model.js +20 -3
  5. package/dist/LinearAlignmentsDisplay/models/model.js.map +1 -1
  6. package/dist/LinearPileupDisplay/model.d.ts +75 -12
  7. package/dist/LinearReadArcsDisplay/components/ReactComponent.js +14 -11
  8. package/dist/LinearReadArcsDisplay/components/ReactComponent.js.map +1 -1
  9. package/dist/LinearReadArcsDisplay/model.d.ts +78 -29
  10. package/dist/LinearReadArcsDisplay/model.js +16 -4
  11. package/dist/LinearReadArcsDisplay/model.js.map +1 -1
  12. package/dist/LinearReadCloudDisplay/model.d.ts +72 -20
  13. package/dist/LinearReadCloudDisplay/model.js +15 -3
  14. package/dist/LinearReadCloudDisplay/model.js.map +1 -1
  15. package/dist/LinearSNPCoverageDisplay/models/model.d.ts +9 -14
  16. package/dist/PileupRenderer/PileupRenderer.js +2 -4
  17. package/dist/PileupRenderer/PileupRenderer.js.map +1 -1
  18. package/esm/LinearAlignmentsDisplay/models/configSchema.js +7 -0
  19. package/esm/LinearAlignmentsDisplay/models/configSchema.js.map +1 -1
  20. package/esm/LinearAlignmentsDisplay/models/model.d.ts +24 -6
  21. package/esm/LinearAlignmentsDisplay/models/model.js +20 -3
  22. package/esm/LinearAlignmentsDisplay/models/model.js.map +1 -1
  23. package/esm/LinearPileupDisplay/model.d.ts +75 -12
  24. package/esm/LinearReadArcsDisplay/components/ReactComponent.js +14 -11
  25. package/esm/LinearReadArcsDisplay/components/ReactComponent.js.map +1 -1
  26. package/esm/LinearReadArcsDisplay/model.d.ts +78 -29
  27. package/esm/LinearReadArcsDisplay/model.js +16 -4
  28. package/esm/LinearReadArcsDisplay/model.js.map +1 -1
  29. package/esm/LinearReadCloudDisplay/model.d.ts +72 -20
  30. package/esm/LinearReadCloudDisplay/model.js +15 -3
  31. package/esm/LinearReadCloudDisplay/model.js.map +1 -1
  32. package/esm/LinearSNPCoverageDisplay/models/model.d.ts +9 -14
  33. package/esm/PileupRenderer/PileupRenderer.js +2 -4
  34. package/esm/PileupRenderer/PileupRenderer.js.map +1 -1
  35. package/package.json +2 -2
  36. package/src/AlignmentsFeatureDetail/__snapshots__/index.test.tsx.snap +19 -19
  37. package/src/LinearAlignmentsDisplay/models/configSchema.ts +8 -0
  38. package/src/LinearAlignmentsDisplay/models/model.tsx +19 -3
  39. package/src/LinearReadArcsDisplay/components/ReactComponent.tsx +14 -12
  40. package/src/LinearReadArcsDisplay/model.tsx +23 -5
  41. package/src/LinearReadCloudDisplay/model.tsx +23 -7
  42. package/src/MismatchParser/index.ts +3 -3
  43. package/src/PileupRenderer/PileupRenderer.ts +2 -4
package/dist/LinearReadCloudDisplay/model.d.ts CHANGED
@@ -2,7 +2,6 @@ import React from 'react';
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  import { Instance } from 'mobx-state-tree';
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  import { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
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  import { ChainData } from '../shared/fetchChains';
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- import { ExportSvgOptions } from '@jbrowse/plugin-linear-genome-view/src/LinearGenomeView';
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  interface Filter {
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  flagInclude: number;
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  flagExclude: number;
@@ -21,14 +20,11 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
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  type: import("mobx-state-tree").ISimpleType<string>;
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  rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
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  } & {
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- height: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
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+ heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
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  blockState: import("mobx-state-tree").IMapType<import("mobx-state-tree").IModelType<{
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  key: import("mobx-state-tree").ISimpleType<string>;
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  region: import("mobx-state-tree").IModelType<{
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  refName: import("mobx-state-tree").ISimpleType<string>;
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- /**
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- * #property
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- */
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  start: import("mobx-state-tree").ISimpleType<number>;
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  end: import("mobx-state-tree").ISimpleType<number>;
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  reversed: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
@@ -44,11 +40,10 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
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  renderInProgress: AbortController | undefined;
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  filled: boolean;
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  reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>> | undefined;
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- features: Map<string, import("@jbrowse/core/util").Feature> | undefined;
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- layout: any;
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- /**
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+ features: Map<string, import("@jbrowse/core/util").Feature> | undefined; /**
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  * #action
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  */
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+ layout: any;
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  status: string;
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  error: unknown;
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  message: string | undefined;
@@ -56,21 +51,18 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
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  ReactComponent: ({ model, }: {
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  model: any;
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  }) => any;
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- /**
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- * #action
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- */
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  renderProps: any;
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  } & {
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  doReload(): void;
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- afterAttach(): void;
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+ afterAttach(): void; /**
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+ * #action
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+ */
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  setStatus(message: string): void;
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  setLoading(abortController: AbortController): void;
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  setMessage(messageText: string): void;
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  setRendered(props: {
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  reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>>;
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- features: Map<string, import("@jbrowse/core/util").Feature>; /**
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- * #getter
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- */
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+ features: Map<string, import("@jbrowse/core/util").Feature>;
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  layout: any;
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  maxHeightReached: boolean;
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  renderProps: any;
@@ -171,6 +163,7 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
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  estimatedRegionStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined;
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  estimatedRegionStats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined;
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  } & {
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+ readonly height: any;
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  readonly blockType: "dynamicBlocks" | "staticBlocks";
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  readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
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  } & {
@@ -200,7 +193,7 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
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  setRegionStatsP(p?: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined): void;
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  setRegionStats(estimatedRegionStats?: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined): void;
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  clearRegionStats(): void;
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- setHeight(displayHeight: number): number;
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+ setHeight(displayHeight: number): any;
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  resizeHeight(distance: number): number;
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  setScrollTop(scrollTop: number): void;
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  updateStatsLimit(stats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats): void;
@@ -231,8 +224,9 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
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  }[];
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  renderProps(): any;
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  } & {
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- renderSvg(opts: ExportSvgOptions & {
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+ renderSvg(opts: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").ExportSvgOptions & {
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  overrideHeight: number;
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+ theme: import("@mui/material").ThemeOptions;
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  }): Promise<JSX.Element>;
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  } & {
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  loading: boolean;
@@ -304,14 +298,72 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
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  /**
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  * #method
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  */
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- renderSvg(opts: ExportSvgOptions): Promise<JSX.Element | undefined>;
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+ renderSvg(opts: {
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+ rasterizeLayers?: boolean;
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+ }): Promise<JSX.Element | undefined>;
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  } & {
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  afterAttach(): void;
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- }, import("mobx-state-tree")._NotCustomized, {
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+ }, {
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+ type: string;
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+ } & Partial<import("mobx-state-tree/dist/internal").ExtractCFromProps<{
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+ id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
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+ type: import("mobx-state-tree").ISimpleType<string>;
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+ rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
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+ } & {
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+ heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
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+ blockState: import("mobx-state-tree").IMapType<import("mobx-state-tree").IModelType<{
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+ key: import("mobx-state-tree").ISimpleType<string>;
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+ region: import("mobx-state-tree").IModelType<{
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+ refName: import("mobx-state-tree").ISimpleType<string>;
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+ start: import("mobx-state-tree").ISimpleType<number>;
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+ end: import("mobx-state-tree").ISimpleType<number>;
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+ reversed: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
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+ } & {
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+ assemblyName: import("mobx-state-tree").ISimpleType<string>;
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+ }, {
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+ setRefName(newRefName: string): void;
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+ }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
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+ reloadFlag: import("mobx-state-tree").IType<number | undefined, number, number>;
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+ isLeftEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
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+ isRightEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
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+ }, {
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+ renderInProgress: AbortController | undefined;
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+ filled: boolean;
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+ reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>> | undefined;
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+ features: Map<string, import("@jbrowse/core/util").Feature> | undefined;
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+ layout: any;
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+ status: string;
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+ error: unknown;
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+ message: string | undefined;
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+ maxHeightReached: boolean;
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+ ReactComponent: ({ model, }: {
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+ model: any;
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+ }) => any;
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+ renderProps: any;
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+ } & {
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+ doReload(): void;
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+ afterAttach(): void;
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+ setStatus(message: string): void;
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+ setLoading(abortController: AbortController): void;
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+ setMessage(messageText: string): void;
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+ setRendered(props: {
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+ reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>>;
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+ features: Map<string, import("@jbrowse/core/util").Feature>;
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+ layout: any;
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+ maxHeightReached: boolean;
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+ renderProps: any;
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+ } | undefined): void;
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+ setError(error: unknown): void;
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+ reload(): void;
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+ beforeDestroy(): void;
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+ }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
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+ userBpPerPxLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
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+ userByteSizeLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
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+ }>> & import("mobx-state-tree/dist/internal").NonEmptyObject & import("mobx-state-tree")._NotCustomized, {
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  type: string;
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- height: number;
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  id: string;
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  rpcDriverName: string | undefined;
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+ heightPreConfig: number | undefined;
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  userBpPerPxLimit: number | undefined;
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  userByteSizeLimit: number | undefined;
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  } & import("mobx-state-tree")._NotCustomized>;
package/dist/LinearReadCloudDisplay/model.js CHANGED
@@ -41,6 +41,11 @@ const fetchChains_1 = require("../shared/fetchChains");
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  const drawFeats_1 = __importDefault(require("./drawFeats"));
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  // async
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  const FilterByTagDlg = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('../shared/FilterByTag'))));
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+ // stabilize clipid under test for snapshot
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+ function getId(id) {
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+ const isJest = typeof jest === 'undefined';
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+ return `cloud-clip-${isJest ? id : 'jest'}`;
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+ }
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  /**
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  * #stateModel LinearReadCloudDisplay
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  * extends `BaseLinearDisplay`
@@ -213,9 +218,16 @@ function stateModelFactory(configSchema) {
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  const C2S = await Promise.resolve().then(() => __importStar(require('canvas2svg')));
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  const ctx = new C2S.default(width, height);
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  await (0, drawFeats_1.default)(self, ctx);
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- str = (
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- // eslint-disable-next-line react/no-danger
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- react_1.default.createElement("g", { dangerouslySetInnerHTML: { __html: ctx.getSvg().innerHTML } }));
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+ const clipid = getId(self.id);
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+ str = (react_1.default.createElement(react_1.default.Fragment, null,
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+ react_1.default.createElement("defs", null,
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+ react_1.default.createElement("clipPath", { id: clipid },
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+ react_1.default.createElement("rect", { x: 0, y: 0, width: width, height: height }))),
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+ react_1.default.createElement("g", {
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+ /* eslint-disable-next-line react/no-danger */
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+ dangerouslySetInnerHTML: {
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+ __html: ctx.getSvg().innerHTML,
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+ }, clipPath: `url(#${clipid})` })));
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  }
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  return react_1.default.createElement("g", null, str);
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  },
package/dist/LinearReadCloudDisplay/model.js.map CHANGED
@@ -1 +1 @@
1
- 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1
+ 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package/dist/LinearSNPCoverageDisplay/models/model.d.ts CHANGED
@@ -10,13 +10,11 @@ declare function stateModelFactory(pluginManager: PluginManager, configSchema: A
10
10
  type: import("mobx-state-tree").ISimpleType<string>;
11
11
  rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
12
12
  } & {
13
- height: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
13
+ heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
14
14
  blockState: import("mobx-state-tree").IMapType<import("mobx-state-tree").IModelType<{
15
15
  key: import("mobx-state-tree").ISimpleType<string>;
16
16
  region: import("mobx-state-tree").IModelType<{
17
- refName: import("mobx-state-tree").ISimpleType<string>; /**
18
- * #property
19
- */
17
+ refName: import("mobx-state-tree").ISimpleType<string>;
20
18
  start: import("mobx-state-tree").ISimpleType<number>;
21
19
  end: import("mobx-state-tree").ISimpleType<number>;
22
20
  reversed: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
@@ -37,17 +35,13 @@ declare function stateModelFactory(pluginManager: PluginManager, configSchema: A
37
35
  status: string;
38
36
  error: unknown;
39
37
  message: string | undefined;
40
- maxHeightReached: boolean; /**
41
- * #action
42
- */
38
+ maxHeightReached: boolean;
43
39
  ReactComponent: ({ model, }: {
44
40
  model: any;
45
41
  }) => any;
46
42
  renderProps: any;
47
43
  } & {
48
- doReload(): void; /**
49
- * #action
50
- */
44
+ doReload(): void;
51
45
  afterAttach(): void;
52
46
  setStatus(message: string): void;
53
47
  setLoading(abortController: AbortController): void;
@@ -156,9 +150,7 @@ declare function stateModelFactory(pluginManager: PluginManager, configSchema: A
156
150
  type: import("mobx-state-tree").ISimpleType<string>;
157
151
  rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
158
152
  }, {
159
- rendererTypeName: string; /**
160
- * #method
161
- */
153
+ rendererTypeName: string;
162
154
  error: unknown;
163
155
  }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
164
156
  }> | null;
@@ -183,6 +175,7 @@ declare function stateModelFactory(pluginManager: PluginManager, configSchema: A
183
175
  estimatedRegionStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined;
184
176
  estimatedRegionStats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined;
185
177
  } & {
178
+ readonly height: any;
186
179
  readonly blockType: "dynamicBlocks" | "staticBlocks";
187
180
  readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
188
181
  } & {
@@ -212,7 +205,7 @@ declare function stateModelFactory(pluginManager: PluginManager, configSchema: A
212
205
  setRegionStatsP(p?: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined): void;
213
206
  setRegionStats(estimatedRegionStats?: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined): void;
214
207
  clearRegionStats(): void;
215
- setHeight(displayHeight: number): number;
208
+ setHeight(displayHeight: number): any;
216
209
  resizeHeight(distance: number): number;
217
210
  setScrollTop(scrollTop: number): void;
218
211
  updateStatsLimit(stats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats): void;
@@ -245,6 +238,7 @@ declare function stateModelFactory(pluginManager: PluginManager, configSchema: A
245
238
  } & {
246
239
  renderSvg(opts: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").ExportSvgOptions & {
247
240
  overrideHeight: number;
241
+ theme: import("@mui/material").ThemeOptions;
248
242
  }): Promise<JSX.Element>;
249
243
  } & {
250
244
  message: string | undefined;
@@ -344,6 +338,7 @@ declare function stateModelFactory(pluginManager: PluginManager, configSchema: A
344
338
  afterAttach(): void;
345
339
  renderSvg(opts: import("@jbrowse/plugin-linear-genome-view/src/LinearGenomeView").ExportSvgOptions & {
346
340
  overrideHeight: number;
341
+ theme: import("@mui/material").ThemeOptions;
347
342
  }): Promise<JSX.Element>;
348
343
  } & {
349
344
  modificationTagMap: Record<string, string> | undefined;
package/dist/PileupRenderer/PileupRenderer.js CHANGED
@@ -59,10 +59,8 @@ function getColorBaseMap(theme) {
59
59
  };
60
60
  }
61
61
  function getContrastBaseMap(theme) {
62
- return Object.fromEntries(Object.entries(getColorBaseMap(theme)).map(([key, value]) => [
63
- key,
64
- theme.palette.getContrastText(value),
65
- ]));
62
+ const map = getColorBaseMap(theme);
63
+ return Object.fromEntries(Object.entries(map).map(([k, v]) => [k, theme.palette.getContrastText(v)]));
66
64
  }
67
65
  const alignmentColoring = {
68
66
  color_fwd_strand_not_proper: '#ECC8C8',
package/dist/PileupRenderer/PileupRenderer.js.map CHANGED
@@ -1 +1 @@
1
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package/esm/LinearAlignmentsDisplay/models/configSchema.js CHANGED
@@ -16,6 +16,13 @@ export default function configModelFactory(pm) {
16
16
  */
17
17
  snpCoverageDisplay: pm.getDisplayType('LinearSNPCoverageDisplay')
18
18
  .configSchema,
19
+ /**
20
+ * #slot
21
+ */
22
+ height: {
23
+ type: 'number',
24
+ defaultValue: 250,
25
+ },
19
26
  }, {
20
27
  /**
21
28
  * #baseConfiguration
package/esm/LinearAlignmentsDisplay/models/configSchema.js.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../../src/LinearAlignmentsDisplay/models/configSchema.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AACjE,OAAO,EAAE,6BAA6B,EAAE,MAAM,oCAAoC,CAAA;AAGlF;;;;GAIG;AACH,MAAM,CAAC,OAAO,UAAU,kBAAkB,CAAC,EAAiB;IAC1D,OAAO,mBAAmB,CACxB,yBAAyB,EACzB;QACE;;WAEG;QACH,aAAa,EAAE,EAAE,CAAC,cAAc,CAAC,qBAAqB,CAAC,CAAC,YAAY;QAEpE;;WAEG;QACH,kBAAkB,EAAE,EAAE,CAAC,cAAc,CAAC,0BAA0B,CAAC;aAC9D,YAAY;KAChB,EACD;QACE;;WAEG;QACH,iBAAiB,EAAE,6BAA6B;QAChD,eAAe,EAAE,IAAI;KACtB,CACF,CAAA;AACH,CAAC"}
1
+ {"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../../src/LinearAlignmentsDisplay/models/configSchema.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AACjE,OAAO,EAAE,6BAA6B,EAAE,MAAM,oCAAoC,CAAA;AAGlF;;;;GAIG;AACH,MAAM,CAAC,OAAO,UAAU,kBAAkB,CAAC,EAAiB;IAC1D,OAAO,mBAAmB,CACxB,yBAAyB,EACzB;QACE;;WAEG;QACH,aAAa,EAAE,EAAE,CAAC,cAAc,CAAC,qBAAqB,CAAC,CAAC,YAAY;QAEpE;;WAEG;QACH,kBAAkB,EAAE,EAAE,CAAC,cAAc,CAAC,0BAA0B,CAAC;aAC9D,YAAY;QAEf;;WAEG;QACH,MAAM,EAAE;YACN,IAAI,EAAE,QAAQ;YACd,YAAY,EAAE,GAAG;SAClB;KACF,EACD;QACE;;WAEG;QACH,iBAAiB,EAAE,6BAA6B;QAChD,eAAe,EAAE,IAAI;KACtB,CACF,CAAA;AACH,CAAC"}
package/esm/LinearAlignmentsDisplay/models/model.d.ts CHANGED
@@ -17,7 +17,7 @@ declare function stateModelFactory(pluginManager: PluginManager, configSchema: A
17
17
  snpCovHeight: import("mobx-state-tree").IType<number | undefined, number, number>;
18
18
  type: import("mobx-state-tree").ISimpleType<"LinearAlignmentsDisplay">;
19
19
  configuration: import("mobx-state-tree").ITypeUnion<any, any, any>;
20
- height: import("mobx-state-tree").IType<number | undefined, number, number>;
20
+ heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
21
21
  userFeatureScreenDensity: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
22
22
  lowerPanelType: import("mobx-state-tree").IType<string | undefined, string, string>;
23
23
  }, {
@@ -58,16 +58,16 @@ declare function stateModelFactory(pluginManager: PluginManager, configSchema: A
58
58
  }, {
59
59
  rendererTypeName: string;
60
60
  error: unknown;
61
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>; /**
62
- * #property
63
- */
61
+ }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
64
62
  }> | null;
65
63
  readonly adapterConfig: any;
66
64
  readonly parentTrack: any;
67
65
  renderProps(): any;
68
66
  readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
69
67
  readonly DisplayMessageComponent: React.FC<any> | undefined;
70
- trackMenuItems(): MenuItem[];
68
+ trackMenuItems(): MenuItem[]; /**
69
+ * #action
70
+ */
71
71
  readonly viewMenuActions: MenuItem[];
72
72
  regionCannotBeRendered(): undefined;
73
73
  } & {
@@ -85,6 +85,11 @@ declare function stateModelFactory(pluginManager: PluginManager, configSchema: A
85
85
  * #action
86
86
  */
87
87
  setSNPCoverageHeight(n: number): void;
88
+ } & {
89
+ /**
90
+ * #getter
91
+ */
92
+ readonly height: any;
88
93
  } & {
89
94
  /**
90
95
  * #getter
@@ -152,7 +157,20 @@ declare function stateModelFactory(pluginManager: PluginManager, configSchema: A
152
157
  * #method
153
158
  */
154
159
  trackMenuItems(): MenuItem[];
155
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
160
+ }, import("mobx-state-tree").ModelCreationType<import("mobx-state-tree/dist/internal").ExtractCFromProps<{
161
+ id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
162
+ type: import("mobx-state-tree").ISimpleType<string>;
163
+ rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
164
+ } & {
165
+ PileupDisplay: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IAnyType>;
166
+ SNPCoverageDisplay: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IAnyModelType>;
167
+ snpCovHeight: import("mobx-state-tree").IType<number | undefined, number, number>;
168
+ type: import("mobx-state-tree").ISimpleType<"LinearAlignmentsDisplay">;
169
+ configuration: import("mobx-state-tree").ITypeUnion<any, any, any>;
170
+ heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
171
+ userFeatureScreenDensity: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
172
+ lowerPanelType: import("mobx-state-tree").IType<string | undefined, string, string>;
173
+ }>>, import("mobx-state-tree")._NotCustomized>;
156
174
  export default stateModelFactory;
157
175
  export type AlignmentsDisplayStateModel = ReturnType<typeof stateModelFactory>;
158
176
  export type AlignmentsDisplayModel = Instance<AlignmentsDisplayStateModel>;
package/esm/LinearAlignmentsDisplay/models/model.js CHANGED
@@ -71,7 +71,7 @@ function AlignmentsModel(pluginManager, configSchema) {
71
71
  /**
72
72
  * #property
73
73
  */
74
- height: 250,
74
+ heightPreConfig: types.maybe(types.number),
75
75
  /**
76
76
  * #property
77
77
  */
@@ -105,6 +105,15 @@ function stateModelFactory(pluginManager, configSchema) {
105
105
  setSNPCoverageHeight(n) {
106
106
  self.snpCovHeight = n;
107
107
  },
108
+ }))
109
+ .views(self => ({
110
+ /**
111
+ * #getter
112
+ */
113
+ get height() {
114
+ var _a;
115
+ return (_a = self.heightPreConfig) !== null && _a !== void 0 ? _a : getConf(self, 'height');
116
+ },
108
117
  }))
109
118
  .views(self => ({
110
119
  /**
@@ -191,8 +200,8 @@ function stateModelFactory(pluginManager, configSchema) {
191
200
  * #action
192
201
  */
193
202
  setHeight(n) {
194
- self.height = Math.max(n, minDisplayHeight);
195
- return self.height;
203
+ self.heightPreConfig = Math.max(n, minDisplayHeight);
204
+ return self.heightPreConfig;
196
205
  },
197
206
  /**
198
207
  * #action
@@ -283,6 +292,14 @@ function stateModelFactory(pluginManager, configSchema) {
283
292
  ];
284
293
  },
285
294
  };
295
+ })
296
+ .preProcessSnapshot(snap => {
297
+ if (!snap) {
298
+ return snap;
299
+ }
300
+ // @ts-ignore
301
+ const { height, ...rest } = snap;
302
+ return { heightPreConfig: height, ...rest };
286
303
  });
287
304
  }
288
305
  export default stateModelFactory;