jbrowse-plugin-msaview 2.4.5 → 2.5.0

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Files changed (28) hide show
  1. package/dist/LaunchMsaView/util.js +1 -1
  2. package/dist/MsaViewPanel/afterCreateAutoruns.d.ts +8 -0
  3. package/dist/MsaViewPanel/afterCreateAutoruns.js +22 -0
  4. package/dist/MsaViewPanel/model.d.ts +139 -500
  5. package/dist/MsaViewPanel/model.js +4 -36
  6. package/dist/MsaViewPanel/pairwiseAlignment.js +2 -9
  7. package/dist/MsaViewPanel/structureConnection.d.ts +0 -6
  8. package/dist/MsaViewPanel/structureConnection.js +0 -16
  9. package/dist/MsaViewPanel/structureConnection.test.js +1 -51
  10. package/dist/MsaViewPanel/syncGenomeHoverToMsaColumn.test.d.ts +1 -0
  11. package/dist/MsaViewPanel/syncGenomeHoverToMsaColumn.test.js +92 -0
  12. package/dist/jbrowse-plugin-msaview.umd.production.min.js +28 -28
  13. package/dist/jbrowse-plugin-msaview.umd.production.min.js.map +4 -4
  14. package/dist/utils/msa.js +9 -8
  15. package/dist/utils/ncbiBlast.js +5 -5
  16. package/dist/version.d.ts +1 -1
  17. package/dist/version.js +1 -1
  18. package/package.json +9 -9
  19. package/src/LaunchMsaView/util.ts +1 -3
  20. package/src/MsaViewPanel/afterCreateAutoruns.ts +22 -0
  21. package/src/MsaViewPanel/model.ts +4 -42
  22. package/src/MsaViewPanel/pairwiseAlignment.ts +2 -7
  23. package/src/MsaViewPanel/structureConnection.test.ts +1 -61
  24. package/src/MsaViewPanel/structureConnection.ts +0 -22
  25. package/src/MsaViewPanel/syncGenomeHoverToMsaColumn.test.ts +112 -0
  26. package/src/utils/msa.ts +10 -8
  27. package/src/utils/ncbiBlast.ts +5 -6
  28. package/src/version.ts +1 -1
package/dist/MsaViewPanel/model.d.ts CHANGED
@@ -53,27 +53,7 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
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  scrollY: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
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  scrollX: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
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  colWidth: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
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- treeFilehandle: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISnapshotProcessor<import("@jbrowse/mobx-state-tree").ITypeUnion<import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"UriLocation">;
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- uri: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- baseUri: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
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- internetAccountId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
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- internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IModelType<{
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- internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
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- }, {}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
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- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
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- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
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- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
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- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- }>>, {
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+ treeFilehandle: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISnapshotProcessor<import("@jbrowse/mobx-state-tree").ITypeUnion<any, {
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  locationType: "UriLocation";
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  uri: string;
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  internetAccountId: string | undefined;
@@ -81,62 +61,19 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
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  internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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  authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
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  }> | undefined;
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- } | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
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- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
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- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
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- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- }>, import("@jbrowse/mobx-state-tree").ModelInstanceType<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
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- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
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- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
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- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- }, {}> | ({
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- locationType: "UriLocation";
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- uri: string;
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- } & Partial<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"UriLocation">;
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- uri: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- baseUri: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
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- internetAccountId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
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- internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IModelType<{
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- internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
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- }, {}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
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- }>> & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject)>, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
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- msaFilehandle: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISnapshotProcessor<import("@jbrowse/mobx-state-tree").ITypeUnion<import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"UriLocation">;
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- uri: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- baseUri: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
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- internetAccountId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
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- internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IModelType<{
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- internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
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- }, {}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
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- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
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- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
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- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
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- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- }>>, {
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+ } | {
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+ locationType: "BlobLocation";
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+ name: string;
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+ blobId: string;
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+ } | {
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+ locationType: "FileHandleLocation";
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+ name: string;
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+ handleId: string;
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+ } | {
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+ locationType: "LocalPathLocation";
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+ localPath: string;
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+ }, any>, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
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+ msaFilehandle: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISnapshotProcessor<import("@jbrowse/mobx-state-tree").ITypeUnion<any, {
140
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  locationType: "UriLocation";
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  uri: string;
142
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  internetAccountId: string | undefined;
@@ -144,62 +81,19 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
144
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  internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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  authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
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  }> | undefined;
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- } | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
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- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
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- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
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- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- }>, import("@jbrowse/mobx-state-tree").ModelInstanceType<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
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- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
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- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
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- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- }, {}> | ({
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- locationType: "UriLocation";
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- uri: string;
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- } & Partial<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
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- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"UriLocation">;
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- uri: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- baseUri: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
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- internetAccountId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
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- internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IModelType<{
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- internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
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- }, {}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
181
- }>> & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject)>, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
182
- treeMetadataFilehandle: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISnapshotProcessor<import("@jbrowse/mobx-state-tree").ITypeUnion<import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
183
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"UriLocation">;
184
- uri: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
185
- baseUri: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
186
- internetAccountId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
187
- internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IModelType<{
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- internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
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- }, {}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
191
- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
192
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
193
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
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- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
195
- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
196
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
197
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
198
- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
199
- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
200
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
201
- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
202
- }>>, {
84
+ } | {
85
+ locationType: "BlobLocation";
86
+ name: string;
87
+ blobId: string;
88
+ } | {
89
+ locationType: "FileHandleLocation";
90
+ name: string;
91
+ handleId: string;
92
+ } | {
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+ locationType: "LocalPathLocation";
94
+ localPath: string;
95
+ }, any>, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
96
+ treeMetadataFilehandle: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISnapshotProcessor<import("@jbrowse/mobx-state-tree").ITypeUnion<any, {
203
97
  locationType: "UriLocation";
204
98
  uri: string;
205
99
  internetAccountId: string | undefined;
@@ -207,62 +101,19 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
207
101
  internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
208
102
  authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
209
103
  }> | undefined;
210
- } | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
211
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
212
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
213
- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
214
- }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
215
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
216
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
217
- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
218
- }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
219
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
220
- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
221
- }>, import("@jbrowse/mobx-state-tree").ModelInstanceType<{
222
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
223
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
224
- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
225
- }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
226
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
227
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
228
- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
229
- }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
230
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
231
- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
232
- }, {}> | ({
233
- locationType: "UriLocation";
234
- uri: string;
235
- } & Partial<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
236
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"UriLocation">;
237
- uri: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
238
- baseUri: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
239
- internetAccountId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
240
- internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IModelType<{
241
- internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
242
- authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
243
- }, {}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
244
- }>> & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject)>, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
245
- gffFilehandle: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISnapshotProcessor<import("@jbrowse/mobx-state-tree").ITypeUnion<import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
246
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"UriLocation">;
247
- uri: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
248
- baseUri: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
249
- internetAccountId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
250
- internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IModelType<{
251
- internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
252
- authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
253
- }, {}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
254
- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
255
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
256
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
257
- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
258
- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
259
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
260
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
261
- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
262
- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
263
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
264
- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
265
- }>>, {
104
+ } | {
105
+ locationType: "BlobLocation";
106
+ name: string;
107
+ blobId: string;
108
+ } | {
109
+ locationType: "FileHandleLocation";
110
+ name: string;
111
+ handleId: string;
112
+ } | {
113
+ locationType: "LocalPathLocation";
114
+ localPath: string;
115
+ }, any>, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
116
+ gffFilehandle: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISnapshotProcessor<import("@jbrowse/mobx-state-tree").ITypeUnion<any, {
266
117
  locationType: "UriLocation";
267
118
  uri: string;
268
119
  internetAccountId: string | undefined;
@@ -270,41 +121,18 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
270
121
  internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
271
122
  authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
272
123
  }> | undefined;
273
- } | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
274
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
275
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
276
- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
277
- }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
278
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
279
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
280
- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
281
- }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
282
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
283
- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
284
- }>, import("@jbrowse/mobx-state-tree").ModelInstanceType<{
285
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
286
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
287
- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
288
- }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
289
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
290
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
291
- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
292
- }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
293
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
294
- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
295
- }, {}> | ({
296
- locationType: "UriLocation";
297
- uri: string;
298
- } & Partial<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
299
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"UriLocation">;
300
- uri: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
301
- baseUri: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
302
- internetAccountId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
303
- internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IModelType<{
304
- internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
305
- authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
306
- }, {}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
307
- }>> & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject)>, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
124
+ } | {
125
+ locationType: "BlobLocation";
126
+ name: string;
127
+ blobId: string;
128
+ } | {
129
+ locationType: "FileHandleLocation";
130
+ name: string;
131
+ handleId: string;
132
+ } | {
133
+ locationType: "LocalPathLocation";
134
+ localPath: string;
135
+ }, any>, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
308
136
  currentAlignment: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
309
137
  collapsed: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
310
138
  showOnly: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
@@ -370,6 +198,7 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
370
198
  status: {
371
199
  msg: string;
372
200
  url?: string;
201
+ onCancel?: () => void;
373
202
  } | undefined;
374
203
  highResScaleFactor: number;
375
204
  loadingMSA: boolean;
@@ -479,6 +308,8 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
479
308
  readonly hierarchy: import("react-msaview").HierarchyNode<import("react-msaview").NodeWithIdsAndLength>;
480
309
  readonly totalHeight: number;
481
310
  readonly leaves: import("react-msaview").HierarchyNode<import("react-msaview").NodeWithIdsAndLength>[];
311
+ readonly maxBranchLength: number;
312
+ readonly maxDepthToLeaf: number;
482
313
  readonly allBranchesLength0: boolean;
483
314
  readonly showBranchLenEffective: boolean;
484
315
  } & {
@@ -512,6 +343,7 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
512
343
  setStatus(status?: {
513
344
  msg: string;
514
345
  url?: string;
346
+ onCancel?: () => void;
515
347
  }): void;
516
348
  } & {
517
349
  readonly labelsWidth: number;
@@ -641,15 +473,6 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
641
473
  proteinView: ProteinView;
642
474
  })[];
643
475
  } & {
644
- /**
645
- * #getter
646
- */
647
- readonly structureHoverCol: number | undefined;
648
- } & {
649
- /**
650
- * #getter
651
- */
652
- readonly mouseCol2: number | undefined;
653
476
  /**
654
477
  * #getter
655
478
  */
@@ -745,51 +568,29 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
745
568
  id: string;
746
569
  displayName: string | undefined;
747
570
  minimized: boolean;
748
- } & import("@jbrowse/mobx-state-tree").NonEmptyObject & Omit<import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
749
- drawLabels: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
750
- labelsAlignRight: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
751
- treeAreaWidth: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<number>, [undefined]>;
752
- treeWidth: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<number>, [undefined]>;
753
- showBranchLen: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
754
- drawTree: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
755
- drawNodeBubbles: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
756
- } & {
757
- bgColor: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
758
- colorSchemeName: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
759
- } & {
760
- id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
761
- showDomains: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
762
- hideGaps: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
763
- allowedGappyness: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
764
- subFeatureRows: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
765
- type: import("@jbrowse/mobx-state-tree").ISimpleType<"MsaView">;
766
- drawMsaLetters: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
767
- height: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<number>, [undefined]>;
768
- rowHeight: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
769
- scrollY: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
770
- scrollX: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
771
- colWidth: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
772
- treeFilehandle: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISnapshotProcessor<import("@jbrowse/mobx-state-tree").ITypeUnion<import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
773
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"UriLocation">;
774
- uri: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
775
- baseUri: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
776
- internetAccountId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
777
- internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IModelType<{
778
- internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
779
- authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
780
- }, {}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
781
- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
782
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
783
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
784
- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
785
- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
786
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
787
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
788
- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
789
- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
790
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
791
- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
792
- }>>, {
571
+ } & Omit<{
572
+ drawLabels: boolean;
573
+ labelsAlignRight: boolean;
574
+ treeAreaWidth: number;
575
+ treeWidth: number;
576
+ showBranchLen: boolean;
577
+ drawTree: boolean;
578
+ drawNodeBubbles: boolean;
579
+ bgColor: boolean;
580
+ colorSchemeName: string;
581
+ id: string;
582
+ showDomains: boolean;
583
+ hideGaps: boolean;
584
+ allowedGappyness: number;
585
+ subFeatureRows: boolean;
586
+ type: "MsaView";
587
+ drawMsaLetters: boolean;
588
+ height: number;
589
+ rowHeight: number;
590
+ scrollY: number;
591
+ scrollX: number;
592
+ colWidth: number;
593
+ treeFilehandle: {
793
594
  locationType: "UriLocation";
794
595
  uri: string;
795
596
  internetAccountId: string | undefined;
@@ -797,62 +598,19 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
797
598
  internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
798
599
  authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
799
600
  }> | undefined;
800
- } | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
801
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
802
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
803
- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
804
- }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
805
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
806
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
807
- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
808
- }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
809
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
810
- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
811
- }>, import("@jbrowse/mobx-state-tree").ModelInstanceType<{
812
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
813
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
814
- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
815
- }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
816
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
817
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
818
- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
819
- }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
820
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
821
- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
822
- }, {}> | ({
823
- locationType: "UriLocation";
824
- uri: string;
825
- } & Partial<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
826
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"UriLocation">;
827
- uri: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
828
- baseUri: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
829
- internetAccountId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
830
- internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IModelType<{
831
- internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
832
- authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
833
- }, {}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
834
- }>> & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject)>, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
835
- msaFilehandle: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISnapshotProcessor<import("@jbrowse/mobx-state-tree").ITypeUnion<import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
836
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"UriLocation">;
837
- uri: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
838
- baseUri: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
839
- internetAccountId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
840
- internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IModelType<{
841
- internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
842
- authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
843
- }, {}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
844
- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
845
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
846
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
847
- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
848
- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
849
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
850
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
851
- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
852
- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
853
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
854
- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
855
- }>>, {
601
+ } | {
602
+ locationType: "BlobLocation";
603
+ name: string;
604
+ blobId: string;
605
+ } | {
606
+ locationType: "FileHandleLocation";
607
+ name: string;
608
+ handleId: string;
609
+ } | {
610
+ locationType: "LocalPathLocation";
611
+ localPath: string;
612
+ } | undefined;
613
+ msaFilehandle: {
856
614
  locationType: "UriLocation";
857
615
  uri: string;
858
616
  internetAccountId: string | undefined;
@@ -860,62 +618,19 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
860
618
  internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
861
619
  authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
862
620
  }> | undefined;
863
- } | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
864
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
865
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
866
- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
867
- }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
868
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
869
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
870
- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
871
- }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
872
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
873
- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
874
- }>, import("@jbrowse/mobx-state-tree").ModelInstanceType<{
875
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
876
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
877
- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
878
- }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
879
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
880
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
881
- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
882
- }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
883
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
884
- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
885
- }, {}> | ({
886
- locationType: "UriLocation";
887
- uri: string;
888
- } & Partial<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
889
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"UriLocation">;
890
- uri: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
891
- baseUri: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
892
- internetAccountId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
893
- internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IModelType<{
894
- internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
895
- authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
896
- }, {}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
897
- }>> & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject)>, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
898
- treeMetadataFilehandle: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISnapshotProcessor<import("@jbrowse/mobx-state-tree").ITypeUnion<import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
899
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"UriLocation">;
900
- uri: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
901
- baseUri: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
902
- internetAccountId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
903
- internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IModelType<{
904
- internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
905
- authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
906
- }, {}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
907
- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
908
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
909
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
910
- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
911
- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
912
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
913
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
914
- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
915
- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
916
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
917
- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
918
- }>>, {
621
+ } | {
622
+ locationType: "BlobLocation";
623
+ name: string;
624
+ blobId: string;
625
+ } | {
626
+ locationType: "FileHandleLocation";
627
+ name: string;
628
+ handleId: string;
629
+ } | {
630
+ locationType: "LocalPathLocation";
631
+ localPath: string;
632
+ } | undefined;
633
+ treeMetadataFilehandle: {
919
634
  locationType: "UriLocation";
920
635
  uri: string;
921
636
  internetAccountId: string | undefined;
@@ -923,62 +638,19 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
923
638
  internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
924
639
  authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
925
640
  }> | undefined;
926
- } | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
927
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
928
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
929
- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
930
- }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
931
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
932
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
933
- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
934
- }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
935
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
936
- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
937
- }>, import("@jbrowse/mobx-state-tree").ModelInstanceType<{
938
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
939
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
940
- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
941
- }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
942
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
943
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
944
- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
945
- }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
946
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
947
- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
948
- }, {}> | ({
949
- locationType: "UriLocation";
950
- uri: string;
951
- } & Partial<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
952
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"UriLocation">;
953
- uri: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
954
- baseUri: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
955
- internetAccountId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
956
- internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IModelType<{
957
- internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
958
- authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
959
- }, {}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
960
- }>> & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject)>, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
961
- gffFilehandle: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISnapshotProcessor<import("@jbrowse/mobx-state-tree").ITypeUnion<import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
962
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"UriLocation">;
963
- uri: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
964
- baseUri: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
965
- internetAccountId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
966
- internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IModelType<{
967
- internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
968
- authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
969
- }, {}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
970
- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
971
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
972
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
973
- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
974
- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
975
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
976
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
977
- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
978
- }>> | import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
979
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
980
- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
981
- }>>, {
641
+ } | {
642
+ locationType: "BlobLocation";
643
+ name: string;
644
+ blobId: string;
645
+ } | {
646
+ locationType: "FileHandleLocation";
647
+ name: string;
648
+ handleId: string;
649
+ } | {
650
+ locationType: "LocalPathLocation";
651
+ localPath: string;
652
+ } | undefined;
653
+ gffFilehandle: {
982
654
  locationType: "UriLocation";
983
655
  uri: string;
984
656
  internetAccountId: string | undefined;
@@ -986,64 +658,31 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
986
658
  internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
987
659
  authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
988
660
  }> | undefined;
989
- } | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
990
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
991
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
992
- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
993
- }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
994
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
995
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
996
- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
997
- }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
998
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
999
- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
1000
- }>, import("@jbrowse/mobx-state-tree").ModelInstanceType<{
1001
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
1002
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
1003
- blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
1004
- }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
1005
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"FileHandleLocation">;
1006
- name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
1007
- handleId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
1008
- }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
1009
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
1010
- localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
1011
- }, {}> | ({
1012
- locationType: "UriLocation";
1013
- uri: string;
1014
- } & Partial<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<{
1015
- locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"UriLocation">;
1016
- uri: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
1017
- baseUri: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
1018
- internetAccountId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
1019
- internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IModelType<{
1020
- internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
1021
- authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
1022
- }, {}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
1023
- }>> & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject)>, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
1024
- currentAlignment: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
1025
- collapsed: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
1026
- showOnly: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
1027
- turnedOffTracks: import("@jbrowse/mobx-state-tree").IMapType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>>;
1028
- data: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IModelType<{
1029
- tree: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
1030
- msa: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
1031
- treeMetadata: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
1032
- gff: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
1033
- }, {
1034
- setTree(tree?: string): void;
1035
- setMSA(msa?: string): void;
1036
- setTreeMetadata(treeMetadata?: string): void;
1037
- setGFF(gff?: string): void;
1038
- }, import("@jbrowse/mobx-state-tree")._NotCustomized, {
661
+ } | {
662
+ locationType: "BlobLocation";
663
+ name: string;
664
+ blobId: string;
665
+ } | {
666
+ locationType: "FileHandleLocation";
667
+ name: string;
668
+ handleId: string;
669
+ } | {
670
+ locationType: "LocalPathLocation";
671
+ localPath: string;
672
+ } | undefined;
673
+ currentAlignment: number;
674
+ collapsed: string[];
675
+ showOnly: string | undefined;
676
+ turnedOffTracks: import("mobx").IKeyValueMap<boolean>;
677
+ data: {
1039
678
  tree: string | undefined;
1040
679
  msa: string | undefined;
1041
680
  treeMetadata: string | undefined;
1042
681
  gff: string | undefined;
1043
- }>, [undefined]>;
1044
- featureFilters: import("@jbrowse/mobx-state-tree").IMapType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>>;
1045
- relativeTo: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
1046
- }>, symbol> & import("@jbrowse/mobx-state-tree")._NotCustomized>;
682
+ };
683
+ featureFilters: import("mobx").IKeyValueMap<boolean>;
684
+ relativeTo: string | undefined;
685
+ }, symbol> & import("@jbrowse/mobx-state-tree")._NotCustomized>;
1047
686
  export type JBrowsePluginMsaViewStateModel = ReturnType<typeof stateModelFactory>;
1048
687
  export type JBrowsePluginMsaViewModel = Instance<JBrowsePluginMsaViewStateModel>;
1049
688
  export { type MafRegion, type MsaViewInitState } from './types';