@jbrowse/plugin-dotplot-view 2.6.1 → 2.6.3

package/esm/DotplotView/components/ImportSyntenyTrackSelector.js

@@ -41,4 +41,3 @@ const Selector = observer(({ model, assembly1, assembly2, setShowTrackId, }) =>
         filteredTracks.length ? (React.createElement(Select, { value: value, onChange: event => setValue(event.target.value) }, filteredTracks.map(track => (React.createElement(MenuItem, { key: track.trackId, value: track.trackId }, getTrackName(track, session)))))) : (React.createElement(ErrorMessage, { error: `No synteny tracks found for ${assembly1},${assembly2}` }))));
 });
 export default Selector;
-//# sourceMappingURL=ImportSyntenyTrackSelector.js.map

package/esm/DotplotView/components/PanButtons.js

@@ -52,4 +52,3 @@ export default observer(function PanButtons({ model, }) {
             } },
             React.createElement(ZoomOut, null))));
 });
-//# sourceMappingURL=PanButtons.js.map

package/esm/DotplotView/components/WarningDialog.js

@@ -33,4 +33,3 @@ export default observer(function WarningDialog({ trackWarnings, handleClose, })
             React.createElement("div", { style: { height: 600, width: '100%', overflow: 'auto' } },
                 React.createElement(DataGrid, { rows: rows, columns: columns, disableRowSelectionOnClick: true, rowHeight: 25, disableColumnMenu: true })))));
 });
-//# sourceMappingURL=WarningDialog.js.map

package/esm/DotplotView/components/util.js

@@ -80,4 +80,3 @@ export function makeTicks(regions, bpPerPx, emitMajor = true, emitMinor = true)
     }
     return ticks;
 }
-//# sourceMappingURL=util.js.map

package/esm/DotplotView/index.js

@@ -12,4 +12,3 @@ export default function (pluginManager) {
         });
     });
 }
-//# sourceMappingURL=index.js.map

package/esm/DotplotView/model.d.ts

@@ -58,15 +58,15 @@ export default function stateModelFactory(pm: PluginManager): import("mobx-state
         readonly width: number;
         readonly assemblyNames: string[];
         readonly displayedRegionsTotalPx: number;
-        readonly maxOffset: number; /**
-         * #property
+        readonly maxOffset: number;
+        readonly minOffset: number; /**
+         * #stateModel DotplotView
+         * #category view
+         * extends  `BaseViewModel`
          */
-        readonly minOffset: number;
         readonly totalBp: number;
     } & {
-        readonly dynamicBlocks: import("@jbrowse/core/util/blockTypes").BlockSet; /**
-         * #property
-         */
+        readonly dynamicBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
         readonly staticBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
         readonly currBp: number;
     } & {
@@ -82,14 +82,20 @@ export default function stateModelFactory(pm: PluginManager): import("mobx-state
             reversed: boolean;
         };
         bpToPx({ refName, coord, regionNumber, }: {
-            refName: string;
+            refName: string; /**
+             * #property
+             */
             coord: number;
-            regionNumber?: number | undefined;
+            regionNumber?: number | undefined; /**
+             * #property
+             */
         }): number | undefined;
     } & {
         setFeatures(features: import("@jbrowse/core/util").Feature[]): void;
         showAllRegions(): void;
-        zoomOut(): void;
+        zoomOut(): void; /**
+         * #property
+         */
         zoomIn(): void;
         zoomTo(bpPerPx: number, offset?: number | undefined): number;
         scrollTo(offsetPx: number): number;
@@ -137,15 +143,15 @@ export default function stateModelFactory(pm: PluginManager): import("mobx-state
         readonly width: number;
         readonly assemblyNames: string[];
         readonly displayedRegionsTotalPx: number;
-        readonly maxOffset: number; /**
-         * #property
+        readonly maxOffset: number;
+        readonly minOffset: number; /**
+         * #stateModel DotplotView
+         * #category view
+         * extends  `BaseViewModel`
          */
-        readonly minOffset: number;
         readonly totalBp: number;
     } & {
-        readonly dynamicBlocks: import("@jbrowse/core/util/blockTypes").BlockSet; /**
-         * #property
-         */
+        readonly dynamicBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
         readonly staticBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
         readonly currBp: number;
     } & {
@@ -161,14 +167,20 @@ export default function stateModelFactory(pm: PluginManager): import("mobx-state
             reversed: boolean;
         };
         bpToPx({ refName, coord, regionNumber, }: {
-            refName: string;
+            refName: string; /**
+             * #property
+             */
             coord: number;
-            regionNumber?: number | undefined;
+            regionNumber?: number | undefined; /**
+             * #property
+             */
         }): number | undefined;
     } & {
         setFeatures(features: import("@jbrowse/core/util").Feature[]): void;
         showAllRegions(): void;
-        zoomOut(): void;
+        zoomOut(): void; /**
+         * #property
+         */
         zoomIn(): void;
         zoomTo(bpPerPx: number, offset?: number | undefined): number;
         scrollTo(offsetPx: number): number;
@@ -207,7 +219,9 @@ export default function stateModelFactory(pm: PluginManager): import("mobx-state
         activateConfigurationUI(): void;
         showDisplay(displayId: string, initialSnapshot?: {} | undefined): void;
         hideDisplay(displayId: string): number;
-        replaceDisplay(oldId: string, newId: string, initialSnapshot?: {} | undefined): void;
+        replaceDisplay(oldId: string, newId: string, initialSnapshot?: {} | undefined): void; /**
+         * #property
+         */
     } & {
         trackMenuItems(): (import("@jbrowse/core/ui").MenuDivider | import("@jbrowse/core/ui").MenuSubHeader | import("@jbrowse/core/ui").NormalMenuItem | import("@jbrowse/core/ui").CheckboxMenuItem | import("@jbrowse/core/ui").RadioMenuItem | import("@jbrowse/core/ui").SubMenuItem | {
             type: string; /**
@@ -216,9 +230,7 @@ export default function stateModelFactory(pm: PluginManager): import("mobx-state
             label: string;
             subMenu: {
                 type: string;
-                label: string; /**
-                 * #property
-                 */
+                label: string;
                 checked: boolean;
                 onClick: () => void;
             }[];
@@ -329,15 +341,15 @@ export default function stateModelFactory(pm: PluginManager): import("mobx-state
         readonly width: number;
         readonly assemblyNames: string[];
         readonly displayedRegionsTotalPx: number;
-        readonly maxOffset: number; /**
-         * #property
+        readonly maxOffset: number;
+        readonly minOffset: number; /**
+         * #stateModel DotplotView
+         * #category view
+         * extends  `BaseViewModel`
          */
-        readonly minOffset: number;
         readonly totalBp: number;
     } & {
-        readonly dynamicBlocks: import("@jbrowse/core/util/blockTypes").BlockSet; /**
-         * #property
-         */
+        readonly dynamicBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
         readonly staticBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
         readonly currBp: number;
     } & {
@@ -353,14 +365,20 @@ export default function stateModelFactory(pm: PluginManager): import("mobx-state
             reversed: boolean;
         };
         bpToPx({ refName, coord, regionNumber, }: {
-            refName: string;
+            refName: string; /**
+             * #property
+             */
             coord: number;
-            regionNumber?: number | undefined;
+            regionNumber?: number | undefined; /**
+             * #property
+             */
         }): number | undefined;
     } & {
         setFeatures(features: import("@jbrowse/core/util").Feature[]): void;
         showAllRegions(): void;
-        zoomOut(): void;
+        zoomOut(): void; /**
+         * #property
+         */
         zoomIn(): void;
         zoomTo(bpPerPx: number, offset?: number | undefined): number;
         scrollTo(offsetPx: number): number;
@@ -407,15 +425,15 @@ export default function stateModelFactory(pm: PluginManager): import("mobx-state
         readonly width: number;
         readonly assemblyNames: string[];
         readonly displayedRegionsTotalPx: number;
-        readonly maxOffset: number; /**
-         * #property
+        readonly maxOffset: number;
+        readonly minOffset: number; /**
+         * #stateModel DotplotView
+         * #category view
+         * extends  `BaseViewModel`
          */
-        readonly minOffset: number;
         readonly totalBp: number;
     } & {
-        readonly dynamicBlocks: import("@jbrowse/core/util/blockTypes").BlockSet; /**
-         * #property
-         */
+        readonly dynamicBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
         readonly staticBlocks: import("@jbrowse/core/util/blockTypes").BlockSet;
         readonly currBp: number;
     } & {
@@ -431,14 +449,20 @@ export default function stateModelFactory(pm: PluginManager): import("mobx-state
             reversed: boolean;
         };
         bpToPx({ refName, coord, regionNumber, }: {
-            refName: string;
+            refName: string; /**
+             * #property
+             */
             coord: number;
-            regionNumber?: number | undefined;
+            regionNumber?: number | undefined; /**
+             * #property
+             */
         }): number | undefined;
     } & {
         setFeatures(features: import("@jbrowse/core/util").Feature[]): void;
         showAllRegions(): void;
-        zoomOut(): void;
+        zoomOut(): void; /**
+         * #property
+         */
         zoomIn(): void;
         zoomTo(bpPerPx: number, offset?: number | undefined): number;
         scrollTo(offsetPx: number): number;

package/esm/DotplotView/model.js

@@ -17,6 +17,15 @@ import { getBlockLabelKeysToHide, makeTicks } from './components/util';
 // lazies
 const ExportSvgDialog = lazy(() => import('./components/ExportSvgDialog'));
 const ReturnToImportFormDialog = lazy(() => import('@jbrowse/core/ui/ReturnToImportFormDialog'));
+const len = (a) => measureText(a.slice(0, 30));
+const pxWidthForBlocks = (blocks, hide) => {
+    return max([
+        ...blocks.filter(b => !hide.has(b.key)).map(b => len(b.refName)),
+        ...blocks
+            .filter(b => !hide.has(b.key))
+            .map(b => len(b.end.toLocaleString('en-us'))),
+    ]);
+};
 /**
  * #stateModel DotplotView
  * #category view
@@ -518,9 +527,8 @@ export default function stateModelFactory(pm) {
                 const voffset = vview.offsetPx;
                 const vhide = getBlockLabelKeysToHide(vblocks, viewHeight, voffset);
                 const hhide = getBlockLabelKeysToHide(hblocks, viewWidth, hoffset);
-                const len = (a) => measureText(a.slice(0, 30));
-                const by = max(hblocks.filter(b => !hhide.has(b.key)).map(b => len(b.refName)));
-                const bx = max(vblocks.filter(b => !vhide.has(b.key)).map(b => len(b.refName)));
+                const by = pxWidthForBlocks(hblocks, hhide);
+                const bx = pxWidthForBlocks(vblocks, vhide);
                 // these are set via autorun to avoid dependency cycle
                 self.setBorderY(Math.max(by + padding, 50));
                 self.setBorderX(Math.max(bx + padding, 50));
@@ -613,4 +621,3 @@ export default function stateModelFactory(pm) {
     }));
 }
 export { Dotplot1DView } from './1dview';
-//# sourceMappingURL=model.js.map

package/esm/DotplotView/svgcomponents/SVGBackground.js

@@ -1,7 +1,7 @@
 import React from 'react';
+import Color from 'color';
 import { useTheme } from '@mui/material';
 export default function SVGBackground({ width, height, }) {
     const theme = useTheme();
-    return (React.createElement("rect", { x: 0, y: 0, width: width, height: height, fill: theme.palette.background.default }));
+    return (React.createElement("rect", { x: 0, y: 0, width: width, height: height, fill: Color(theme.palette.background.default).hex() }));
 }
-//# sourceMappingURL=SVGBackground.js.map

package/esm/DotplotView/svgcomponents/SVGDotplotView.js

@@ -37,4 +37,3 @@ export async function renderToSvg(model, opts) {
                 React.createElement("g", { transform: `translate(${borderX} ${viewHeight})` },
                     React.createElement(HorizontalAxisRaw, { model: model }))))));
 }
-//# sourceMappingURL=SVGDotplotView.js.map

package/esm/LaunchDotplotView.js

@@ -39,4 +39,3 @@ function tryTrack(model, trackId, idsNotFound) {
         }
     }
 }
-//# sourceMappingURL=LaunchDotplotView.js.map

package/esm/ServerSideRenderedBlockContent.js

@@ -59,4 +59,3 @@ export default observer(function ({ model, style, }) {
     }
     return null;
 });
-//# sourceMappingURL=ServerSideRenderedBlockContent.js.map

package/esm/ServerSideSyntenyRendering.js

@@ -26,4 +26,3 @@ ServerSideSyntenyRendering.propTypes = {
     model: PropTypes.observableObject.isRequired,
 };
 export default observer(ServerSideSyntenyRendering);
-//# sourceMappingURL=ServerSideSyntenyRendering.js.map

package/esm/index.js

@@ -35,4 +35,3 @@ export default class DotplotPlugin extends Plugin {
         }
     }
 }
-//# sourceMappingURL=index.js.map

package/esm/util.js

@@ -2,4 +2,3 @@ export function getTag(f, tag) {
     const tags = f.get('tags');
     return tags ? tags[tag] : f.get(tag);
 }
-//# sourceMappingURL=util.js.map

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-dotplot-view",
-  "version": "2.6.1",
+  "version": "2.6.3",
   "description": "JBrowse 2 dotplot view",
   "keywords": [
     "jbrowse",
@@ -20,7 +20,6 @@
   "main": "dist/index.js",
   "files": [
     "dist",
-    "src",
     "esm"
   ],
   "scripts": {
@@ -33,7 +32,7 @@
     "useSrc": "node ../../scripts/useSrc.js",
     "prebuild": "npm run clean",
     "build:esm": "tsc --build tsconfig.build.esm.json",
-    "build:es5": "tsc --build tsconfig.build.es5.json",
+    "build:commonjs": "tsc --build tsconfig.build.commonjs.json",
     "clean": "rimraf dist esm *.tsbuildinfo"
   },
   "dependencies": {
@@ -43,6 +42,7 @@
     "@types/file-saver": "^2.0.1",
     "@types/normalize-wheel": "^1.0.0",
     "clone": "^2.1.2",
+    "color": "^3.1.3",
     "file-saver": "^2.0.0",
     "normalize-wheel": "^1.0.1",
     "react-popper": "^2.0.0"
@@ -65,5 +65,5 @@
   "publishConfig": {
     "access": "public"
   },
-  "gitHead": "1cbe7ba097fb2d2763c776e5e429e4670cdd583c"
+  "gitHead": "ed402c87efb0904858d602c363bd1757d5742129"
 }

package/dist/ComparativeRenderer/index.js.map

@@ -1 +0,0 @@
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package/dist/DotplotDisplay/components/DotplotDisplay.js.map

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package/dist/DotplotDisplay/index.js.map

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package/dist/DotplotDisplay/renderDotplotBlock.js.map

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package/dist/DotplotRenderer/components/DotplotRendering.js.map

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package/dist/DotplotRenderer/configSchema.js.map

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package/dist/DotplotView/components/CursorIcon.js.map

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package/dist/DotplotView/components/DotplotTooltip.js.map

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package/dist/DotplotView/components/DotplotView.js.map

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package/dist/DotplotView/components/DotplotWarnings.js.map

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package/dist/DotplotView/components/ExportSvgDialog.js.map

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package/dist/DotplotView/components/Grid.js.map

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package/dist/DotplotView/components/Header.js.map

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package/dist/DotplotView/components/ImportCustomTrack.js.map

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package/dist/DotplotView/components/ImportForm.js.map

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package/dist/DotplotView/components/ImportSyntenyTrackSelector.js.map

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package/dist/DotplotView/components/PanButtons.js.map

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