@jbrowse/plugin-sequence 4.1.1 → 4.1.4

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Files changed (11) hide show
  1. package/esm/BgzipFastaAdapter/configSchema.d.ts +2 -2
  2. package/esm/ChromSizesAdapter/configSchema.d.ts +2 -2
  3. package/esm/DivSequenceRenderer/configSchema.d.ts +2 -2
  4. package/esm/IndexedFastaAdapter/configSchema.d.ts +2 -2
  5. package/esm/LinearReferenceSequenceDisplay/configSchema.d.ts +4 -4
  6. package/esm/LinearReferenceSequenceDisplay/model.d.ts +22 -10
  7. package/esm/ReferenceSequenceTrack/configSchema.d.ts +4 -4
  8. package/esm/SequenceSearchAdapter/configSchema.d.ts +2 -2
  9. package/esm/TwoBitAdapter/configSchema.d.ts +2 -2
  10. package/esm/UnindexedFastaAdapter/configSchema.d.ts +2 -2
  11. package/package.json +4 -4
package/esm/BgzipFastaAdapter/configSchema.d.ts CHANGED
@@ -1,4 +1,4 @@
1
- declare const BgzipFastaAdapter: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
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+ declare const BgzipFastaAdapter: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
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  fastaLocation: {
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  type: string;
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  defaultValue: {
@@ -28,5 +28,5 @@ declare const BgzipFastaAdapter: import("node_modules/@jbrowse/core/src/configur
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  locationType: string;
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  };
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  };
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- }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
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+ }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
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  export default BgzipFastaAdapter;
package/esm/ChromSizesAdapter/configSchema.d.ts CHANGED
@@ -1,4 +1,4 @@
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- declare const ChromSizesAdapter: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
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+ declare const ChromSizesAdapter: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
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  chromSizesLocation: {
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  type: string;
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  defaultValue: {
@@ -6,5 +6,5 @@ declare const ChromSizesAdapter: import("node_modules/@jbrowse/core/src/configur
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  locationType: string;
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  };
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  };
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- }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
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+ }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
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  export default ChromSizesAdapter;
package/esm/DivSequenceRenderer/configSchema.d.ts CHANGED
@@ -1,8 +1,8 @@
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- declare const DivSequenceRenderer: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
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+ declare const DivSequenceRenderer: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
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  height: {
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  type: string;
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  description: string;
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  defaultValue: number;
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  };
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- }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
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+ }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
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  export default DivSequenceRenderer;
package/esm/IndexedFastaAdapter/configSchema.d.ts CHANGED
@@ -1,4 +1,4 @@
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- declare const IndexedFastaAdapter: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
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+ declare const IndexedFastaAdapter: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
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  fastaLocation: {
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  type: string;
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  defaultValue: {
@@ -21,5 +21,5 @@ declare const IndexedFastaAdapter: import("node_modules/@jbrowse/core/src/config
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  locationType: string;
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  };
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  };
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- }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
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+ }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
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  export default IndexedFastaAdapter;
package/esm/LinearReferenceSequenceDisplay/configSchema.d.ts CHANGED
@@ -1,9 +1,9 @@
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- export declare const configSchema: import("node_modules/@jbrowse/core/src/configuration/configurationSchema.ts").ConfigurationSchemaType<{
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- renderer: import("node_modules/@jbrowse/core/src/configuration/configurationSchema.ts").ConfigurationSchemaType<{
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+ export declare const configSchema: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
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+ renderer: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
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  height: {
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  type: string;
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  description: string;
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  defaultValue: number;
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  };
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- }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema.ts").ConfigurationSchemaOptions<undefined, undefined>>;
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- }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema.ts").ConfigurationSchemaOptions<undefined, "displayId">>;
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+ }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
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+ }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
package/esm/LinearReferenceSequenceDisplay/model.d.ts CHANGED
@@ -33,6 +33,7 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
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  statusMessage?: string;
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  reactElement?: React.ReactElement;
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  isRenderingPending?: boolean;
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+ displayHeight?: number;
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  };
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  }) => import("react/jsx-runtime").JSX.Element;
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  renderProps: any;
@@ -51,10 +52,11 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
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  beforeDestroy(): void;
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  } & {
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  readonly statusMessage: any;
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+ readonly displayHeight: number | undefined;
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  } & {
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  afterAttach(): void;
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  }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
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- configuration: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
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+ configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
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  maxFeatureScreenDensity: {
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  type: string;
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  description: string;
@@ -81,7 +83,7 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
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  description: string;
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  defaultValue: never[];
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  };
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- }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
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+ }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
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  showLegend: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>>;
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  showTooltips: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>>;
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  } & {
@@ -378,6 +380,7 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
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  statusMessage?: string;
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  reactElement?: React.ReactElement;
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  isRenderingPending?: boolean;
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+ displayHeight?: number;
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  };
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  }) => import("react/jsx-runtime").JSX.Element;
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  renderProps: any;
@@ -396,6 +399,7 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
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  beforeDestroy(): void;
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  } & {
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  readonly statusMessage: any;
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+ readonly displayHeight: number | undefined;
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  } & {
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  afterAttach(): void;
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  }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>> & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IMapType<import("@jbrowse/mobx-state-tree").IModelType<{
@@ -422,6 +426,7 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
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  statusMessage?: string;
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  reactElement?: React.ReactElement;
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  isRenderingPending?: boolean;
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+ displayHeight?: number;
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  };
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  }) => import("react/jsx-runtime").JSX.Element;
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  renderProps: any;
@@ -440,6 +445,7 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
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  beforeDestroy(): void;
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  } & {
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  readonly statusMessage: any;
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+ readonly displayHeight: number | undefined;
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  } & {
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  afterAttach(): void;
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  }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>>;
@@ -453,7 +459,7 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
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  [x: string]: any;
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  } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & any & import("@jbrowse/mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>);
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  } & import("@jbrowse/mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>);
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- } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
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+ } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
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  maxFeatureScreenDensity: {
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  type: string;
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  description: string;
@@ -480,7 +486,7 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
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  description: string;
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  defaultValue: never[];
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  };
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- }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>>;
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+ }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>>;
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  showLegend: boolean | undefined;
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  showTooltips: boolean | undefined;
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  } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & {
@@ -770,6 +776,7 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
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  statusMessage?: string;
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  reactElement?: React.ReactElement;
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  isRenderingPending?: boolean;
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+ displayHeight?: number;
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  };
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  }) => import("react/jsx-runtime").JSX.Element;
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  renderProps: any;
@@ -788,10 +795,11 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
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  beforeDestroy(): void;
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  } & {
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  readonly statusMessage: any;
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+ readonly displayHeight: number | undefined;
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  } & {
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  afterAttach(): void;
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  }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
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- configuration: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
802
+ configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
795
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  maxFeatureScreenDensity: {
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  type: string;
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  description: string;
@@ -818,7 +826,7 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
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  description: string;
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  defaultValue: never[];
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  };
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- }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
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+ }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
822
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  showLegend: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>>;
823
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  showTooltips: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>>;
824
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  }, {
@@ -1145,6 +1153,7 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
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  statusMessage?: string;
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  reactElement?: React.ReactElement;
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  isRenderingPending?: boolean;
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+ displayHeight?: number;
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  };
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  }) => import("react/jsx-runtime").JSX.Element;
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  renderProps: any;
@@ -1163,10 +1172,11 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
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  beforeDestroy(): void;
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  } & {
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  readonly statusMessage: any;
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+ readonly displayHeight: number | undefined;
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  } & {
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  afterAttach(): void;
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  }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
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- configuration: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
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+ configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
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  maxFeatureScreenDensity: {
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  type: string;
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  description: string;
@@ -1193,7 +1203,7 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
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  description: string;
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  defaultValue: never[];
1195
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  };
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- }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
1206
+ }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
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  showLegend: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>>;
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  showTooltips: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>>;
1199
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  }>> & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
@@ -1230,6 +1240,7 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
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  statusMessage?: string;
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  reactElement?: React.ReactElement;
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  isRenderingPending?: boolean;
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+ displayHeight?: number;
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  };
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  }) => import("react/jsx-runtime").JSX.Element;
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  renderProps: any;
@@ -1248,10 +1259,11 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
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  beforeDestroy(): void;
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  } & {
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  readonly statusMessage: any;
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+ readonly displayHeight: number | undefined;
1251
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  } & {
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  afterAttach(): void;
1253
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  }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
1254
- configuration: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
1266
+ configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
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  maxFeatureScreenDensity: {
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  type: string;
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  description: string;
@@ -1278,7 +1290,7 @@ export declare function modelFactory(configSchema: AnyConfigurationSchemaType):
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  description: string;
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  defaultValue: never[];
1280
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  };
1281
- }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
1293
+ }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
1282
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  showLegend: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>>;
1283
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  showTooltips: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>>;
1284
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  } & {
package/esm/ReferenceSequenceTrack/configSchema.d.ts CHANGED
@@ -1,5 +1,5 @@
1
1
  import type PluginManager from '@jbrowse/core/PluginManager';
2
- export declare function createReferenceSeqTrackConfig(pluginManager: PluginManager): import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
2
+ export declare function createReferenceSeqTrackConfig(pluginManager: PluginManager): import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
3
3
  adapter: import("@jbrowse/mobx-state-tree").IAnyModelType;
4
4
  displays: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyModelType>;
5
5
  name: {
@@ -22,7 +22,7 @@ export declare function createReferenceSeqTrackConfig(pluginManager: PluginManag
22
22
  description: string;
23
23
  defaultValue: {};
24
24
  };
25
- formatAbout: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
25
+ formatAbout: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
26
26
  config: {
27
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  type: string;
28
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  description: string;
@@ -33,5 +33,5 @@ export declare function createReferenceSeqTrackConfig(pluginManager: PluginManag
33
33
  type: string;
34
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  defaultValue: boolean;
35
35
  };
36
- }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
37
- }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "trackId">>;
36
+ }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
37
+ }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "trackId">>;
package/esm/SequenceSearchAdapter/configSchema.d.ts CHANGED
@@ -1,4 +1,4 @@
1
- declare const configSchema: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
1
+ declare const configSchema: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
2
2
  search: {
3
3
  type: string;
4
4
  defaultValue: string;
@@ -20,5 +20,5 @@ declare const configSchema: import("node_modules/@jbrowse/core/src/configuration
20
20
  type: string;
21
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  defaultValue: boolean;
22
22
  };
23
- }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
23
+ }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
24
24
  export default configSchema;
package/esm/TwoBitAdapter/configSchema.d.ts CHANGED
@@ -1,4 +1,4 @@
1
- declare const TwoBitAdapter: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
1
+ declare const TwoBitAdapter: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
2
2
  twoBitLocation: {
3
3
  type: string;
4
4
  defaultValue: {
@@ -14,5 +14,5 @@ declare const TwoBitAdapter: import("node_modules/@jbrowse/core/src/configuratio
14
14
  };
15
15
  description: string;
16
16
  };
17
- }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
17
+ }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
18
18
  export default TwoBitAdapter;
package/esm/UnindexedFastaAdapter/configSchema.d.ts CHANGED
@@ -1,4 +1,4 @@
1
- declare const UnindexedFastaAdapter: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
1
+ declare const UnindexedFastaAdapter: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
2
2
  rewriteRefNames: {
3
3
  type: string;
4
4
  defaultValue: string;
@@ -19,5 +19,5 @@ declare const UnindexedFastaAdapter: import("node_modules/@jbrowse/core/src/conf
19
19
  locationType: string;
20
20
  };
21
21
  };
22
- }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
22
+ }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
23
23
  export default UnindexedFastaAdapter;
package/package.json CHANGED
@@ -1,6 +1,6 @@
1
1
  {
2
2
  "name": "@jbrowse/plugin-sequence",
3
- "version": "4.1.1",
3
+ "version": "4.1.4",
4
4
  "type": "module",
5
5
  "description": "JBrowse 2 sequence adapters, tracks, etc.",
6
6
  "keywords": [
@@ -25,12 +25,12 @@
25
25
  "@gmod/indexedfasta": "^5.0.2",
26
26
  "@gmod/twobit": "^6.0.1",
27
27
  "@jbrowse/mobx-state-tree": "^5.5.0",
28
- "@mui/material": "^7.3.7",
28
+ "@mui/material": "^7.3.8",
29
29
  "mobx": "^6.15.0",
30
30
  "mobx-react": "^9.2.1",
31
31
  "rxjs": "^7.8.2",
32
- "@jbrowse/core": "^4.1.1",
33
- "@jbrowse/plugin-linear-genome-view": "^4.1.1"
32
+ "@jbrowse/plugin-linear-genome-view": "^4.1.4",
33
+ "@jbrowse/core": "^4.1.4"
34
34
  },
35
35
  "peerDependencies": {
36
36
  "react": ">=18.0.0"