jbrowse-plugin-protein3d 0.0.4 → 0.0.5

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 (26) hide show
  1. package/dist/AddHighlightModel/HighlightComponents.d.ts +1 -2
  2. package/dist/AddHighlightModel/HighlightComponents.js.map +1 -1
  3. package/dist/LaunchProteinView/components/AlphaFoldDBSearch.js +7 -8
  4. package/dist/LaunchProteinView/components/AlphaFoldDBSearch.js.map +1 -1
  5. package/dist/LaunchProteinView/components/LaunchProteinViewDialog.js +8 -4
  6. package/dist/LaunchProteinView/components/LaunchProteinViewDialog.js.map +1 -1
  7. package/dist/LaunchProteinView/components/ManualUniProtIDEntry.d.ts +8 -0
  8. package/dist/LaunchProteinView/components/ManualUniProtIDEntry.js +225 -0
  9. package/dist/LaunchProteinView/components/ManualUniProtIDEntry.js.map +1 -0
  10. package/dist/LaunchProteinView/components/UserProvidedStructure.js +1 -1
  11. package/dist/LaunchProteinView/components/UserProvidedStructure.js.map +1 -1
  12. package/dist/ProteinView/components/ProteinView.js +1 -1
  13. package/dist/ProteinView/components/ProteinView.js.map +1 -1
  14. package/dist/ProteinView/model.d.ts +26 -30
  15. package/dist/ProteinView/model.js +1 -0
  16. package/dist/ProteinView/model.js.map +1 -1
  17. package/dist/jbrowse-plugin-protein3d.umd.production.min.js +1181 -318
  18. package/dist/jbrowse-plugin-protein3d.umd.production.min.js.map +4 -4
  19. package/package.json +6 -6
  20. package/src/AddHighlightModel/HighlightComponents.tsx +1 -3
  21. package/src/LaunchProteinView/components/AlphaFoldDBSearch.tsx +8 -9
  22. package/src/LaunchProteinView/components/LaunchProteinViewDialog.tsx +12 -3
  23. package/src/LaunchProteinView/components/ManualUniProtIDEntry.tsx +332 -0
  24. package/src/LaunchProteinView/components/UserProvidedStructure.tsx +1 -1
  25. package/src/ProteinView/components/ProteinView.tsx +1 -1
  26. package/src/ProteinView/model.ts +1 -0
package/dist/ProteinView/model.d.ts CHANGED
@@ -57,7 +57,7 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
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  showCytobandsSetting: boolean;
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  trackLabels: string;
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  showGridlines: boolean;
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- highlight: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IType<Required<import("@jbrowse/core/util").ParsedLocString>, Required<import("@jbrowse/core/util").ParsedLocString>, Required<import("@jbrowse/core/util").ParsedLocString>>> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<Required<import("@jbrowse/core/util").ParsedLocString>, Required<import("@jbrowse/core/util").ParsedLocString>, Required<import("@jbrowse/core/util").ParsedLocString>>>, [undefined]>>;
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+ highlight: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").HighlightType, import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").HighlightType, import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").HighlightType>> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").HighlightType, import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").HighlightType, import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").HighlightType>>, [undefined]>>;
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  colorByCDS: boolean;
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  showTrackOutlines: boolean;
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  } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
@@ -73,7 +73,7 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
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  minimumBlockWidth: number;
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  draggingTrackId: undefined | string;
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  volatileError: unknown;
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- afterDisplayedRegionsSetCallbacks: Function[];
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+ afterDisplayedRegionsSetCallbacks: (() => void)[];
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  scaleFactor: number;
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  trackRefs: Record<string, HTMLDivElement>;
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  coarseDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
@@ -86,9 +86,9 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
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  readonly interRegionPaddingWidth: number;
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  readonly assemblyNames: string[];
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  } & {
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- scaleBarDisplayPrefix(): string;
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- MiniControlsComponent(): import("react").FC<any>;
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- HeaderComponent(): import("react").FC<any>;
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+ scaleBarDisplayPrefix(): string | undefined;
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+ MiniControlsComponent(): React.FC<any>;
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+ HeaderComponent(): React.FC<any>;
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  readonly assemblyErrors: string;
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  readonly assembliesInitialized: boolean;
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  readonly initialized: boolean;
@@ -101,7 +101,7 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
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  readonly totalBp: number;
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  readonly maxBpPerPx: number;
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  readonly minBpPerPx: number;
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- readonly error: {};
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+ readonly error: unknown;
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  readonly maxOffset: number;
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  readonly minOffset: number;
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  readonly displayedRegionsTotalPx: number;
@@ -125,9 +125,9 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
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  setHideHeaderOverview(b: boolean): void;
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  setHideNoTracksActive(b: boolean): void;
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  setShowGridlines(b: boolean): void;
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- addToHighlights(highlight: Required<import("@jbrowse/core/util").ParsedLocString>): void;
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- setHighlight(highlight: Required<import("@jbrowse/core/util").ParsedLocString>[] | undefined): void;
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- removeHighlight(highlight: Required<import("@jbrowse/core/util").ParsedLocString>): void;
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+ addToHighlights(highlight: import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").HighlightType): void;
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+ setHighlight(highlight?: import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").HighlightType[]): void;
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+ removeHighlight(highlight: import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").HighlightType): void;
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  scrollTo(offsetPx: number): number;
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  zoomTo(bpPerPx: number, offset?: number, centerAtOffset?: boolean): number;
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  setOffsets(left?: import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").BpOffset, right?: import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").BpOffset): void;
@@ -142,7 +142,6 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
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  moveTrackToTop(id: string): void;
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  moveTrackToBottom(id: string): void;
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  moveTrack(movingId: string, targetId: string): void;
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- closeView(): void;
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  toggleTrack(trackId: string): boolean;
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  setTrackLabels(setting: "overlapping" | "offset" | "hidden"): void;
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  setShowCenterLine(b: boolean): void;
@@ -162,7 +161,7 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
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  variant?: string;
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  isLeftEndOfDisplayedRegion?: boolean;
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  }[];
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- afterDisplayedRegionsSet(cb: Function): void;
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+ afterDisplayedRegionsSet(cb: () => void): void;
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  horizontalScroll(distance: number): number;
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  center(): void;
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  showAllRegions(): void;
@@ -241,15 +240,13 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
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  displayName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
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  minimized: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
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  } & {
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- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree" /**
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- * #action
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- */).ISimpleType<string>, [undefined]>;
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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").IType<string | undefined, string, string>;
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  offsetPx: import("mobx-state-tree").IType<number | undefined, number, number>;
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- bpPerPx: import("mobx-state-tree" /**
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+ bpPerPx: import("mobx-state-tree").IType<number | undefined, number, number>;
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+ displayedRegions: import("mobx-state-tree" /**
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  * #action
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- */).IType<number | undefined, number, number>;
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- displayedRegions: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IType<import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[]>, [undefined]>;
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+ */).IOptionalIType<import("mobx-state-tree").IType<import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[], import("@jbrowse/core/util").Region[]>, [undefined]>;
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  tracks: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>;
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  hideHeader: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
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  hideHeaderOverview: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
@@ -259,7 +256,7 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
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  showCytobandsSetting: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
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  trackLabels: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
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  showGridlines: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
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- highlight: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<Required<import("@jbrowse/core/util").ParsedLocString>, Required<import("@jbrowse/core/util").ParsedLocString>, Required<import("@jbrowse/core/util").ParsedLocString>>>, [undefined]>;
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+ highlight: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").HighlightType, import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").HighlightType, import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").HighlightType>>, [undefined]>;
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  colorByCDS: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
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  showTrackOutlines: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
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  }, {
@@ -275,7 +272,7 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
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  minimumBlockWidth: number;
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  draggingTrackId: undefined | string;
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  volatileError: unknown;
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- afterDisplayedRegionsSetCallbacks: Function[];
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+ afterDisplayedRegionsSetCallbacks: (() => void)[];
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  scaleFactor: number;
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  trackRefs: Record<string, HTMLDivElement>;
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  coarseDynamicBlocks: import("@jbrowse/core/util/blockTypes").BaseBlock[];
@@ -288,9 +285,9 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
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  readonly interRegionPaddingWidth: number;
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  readonly assemblyNames: string[];
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  } & {
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- scaleBarDisplayPrefix(): string;
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- MiniControlsComponent(): import("react").FC<any>;
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- HeaderComponent(): import("react").FC<any>;
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+ scaleBarDisplayPrefix(): string | undefined;
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+ MiniControlsComponent(): React.FC<any>;
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+ HeaderComponent(): React.FC<any>;
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  readonly assemblyErrors: string;
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  readonly assembliesInitialized: boolean;
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  readonly initialized: boolean;
@@ -303,7 +300,7 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
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  readonly totalBp: number;
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  readonly maxBpPerPx: number;
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  readonly minBpPerPx: number;
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- readonly error: {};
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+ readonly error: unknown;
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  readonly maxOffset: number;
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  readonly minOffset: number;
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  readonly displayedRegionsTotalPx: number;
@@ -327,9 +324,9 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
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  setHideHeaderOverview(b: boolean): void;
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  setHideNoTracksActive(b: boolean): void;
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  setShowGridlines(b: boolean): void;
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- addToHighlights(highlight: Required<import("@jbrowse/core/util").ParsedLocString>): void;
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- setHighlight(highlight: Required<import("@jbrowse/core/util").ParsedLocString>[] | undefined): void;
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- removeHighlight(highlight: Required<import("@jbrowse/core/util").ParsedLocString>): void;
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+ addToHighlights(highlight: import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").HighlightType): void;
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+ setHighlight(highlight?: import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").HighlightType[]): void;
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+ removeHighlight(highlight: import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").HighlightType): void;
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  scrollTo(offsetPx: number): number;
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  zoomTo(bpPerPx: number, offset?: number, centerAtOffset?: boolean): number;
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  setOffsets(left?: import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").BpOffset, right?: import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").BpOffset): void;
@@ -344,7 +341,6 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
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  moveTrackToTop(id: string): void;
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  moveTrackToBottom(id: string): void;
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  moveTrack(movingId: string, targetId: string): void;
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- closeView(): void;
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  toggleTrack(trackId: string): boolean;
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  setTrackLabels(setting: "overlapping" | "offset" | "hidden"): void;
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  setShowCenterLine(b: boolean): void;
@@ -364,7 +360,7 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
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  variant?: string;
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  isLeftEndOfDisplayedRegion?: boolean;
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  }[];
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- afterDisplayedRegionsSet(cb: Function): void;
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+ afterDisplayedRegionsSet(cb: () => void): void;
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  horizontalScroll(distance: number): number;
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  center(): void;
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  showAllRegions(): void;
@@ -457,7 +453,7 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
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  showCytobandsSetting: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
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  trackLabels: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
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  showGridlines: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
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- highlight: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<Required<import("@jbrowse/core/util").ParsedLocString>, Required<import("@jbrowse/core/util").ParsedLocString>, Required<import("@jbrowse/core/util").ParsedLocString>>>, [undefined]>;
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+ highlight: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").HighlightType, import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").HighlightType, import("@jbrowse/plugin-linear-genome-view/dist/LinearGenomeView").HighlightType>>, [undefined]>;
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  colorByCDS: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
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  showTrackOutlines: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
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  }>>, import("mobx-state-tree")._NotCustomized>>) | undefined;
@@ -531,7 +527,7 @@ declare function stateModelFactory(): import("mobx-state-tree").IModelType<{
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  /**
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  * #action
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  */
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- setHeight(n: number): void;
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+ setHeight(n: number): number;
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  /**
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  * #action
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  */
package/dist/ProteinView/model.js CHANGED
@@ -67,6 +67,7 @@ function stateModelFactory() {
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  */
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  setHeight(n) {
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  self.height = n;
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+ return n;
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  },
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  /**
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  * #action
package/dist/ProteinView/model.js.map CHANGED
@@ -1 +1 @@
1
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