@jbrowse/plugin-arc 4.1.13 → 4.1.15

package/esm/ArcRenderer/ArcRendering.d.ts

@@ -1,11 +1,12 @@
 import type { AnyConfigurationModel } from '@jbrowse/core/configuration';
 import type { Feature, Region } from '@jbrowse/core/util';
-declare const ArcRendering: ({ features, config, regions, bpPerPx, height, exportSVG, displayModel, onFeatureClick, }: {
+declare const ArcRendering: ({ features, config, regions, bpPerPx, height, displayMode, exportSVG, displayModel, onFeatureClick, }: {
     features: Map<string, Feature>;
     config: AnyConfigurationModel;
     regions: Region[];
     bpPerPx: number;
     height: number;
+    displayMode?: string;
     displayModel?: {
         selectedFeatureId: string;
     };

package/esm/ArcRenderer/ArcRendering.js

@@ -51,10 +51,10 @@ function ArcFeature({ selectedFeatureId, region, bpPerPx, config, displayHeight,
                     setIsMouseOvered(false);
                 }, pointerEvents: "stroke" }), isMouseOvered ? (_jsx(Suspense, { fallback: null, children: _jsx(ArcTooltip, { contents: caption }) })) : null, _jsx("text", { x: centerX, y: textYCoord + 3, stroke: "white", strokeWidth: "0.6em", children: label }), _jsx("text", { x: centerX, y: textYCoord + 3, stroke: textStroke, children: label })] }));
 }
-const ArcRendering = observer(function ArcRendering({ features, config, regions, bpPerPx, height, exportSVG, displayModel, onFeatureClick, }) {
+const ArcRendering = observer(function ArcRendering({ features, config, regions, bpPerPx, height, displayMode, exportSVG, displayModel, onFeatureClick, }) {
     const region = regions[0];
     const width = (region.end - region.start) / bpPerPx;
-    const semicircle = readConfObject(config, 'displayMode') === 'semicircles';
+    const semicircle = (displayMode ?? readConfObject(config, 'displayMode')) === 'semicircles';
     const { selectedFeatureId } = displayModel || {};
     const children = [...features.values()].map(f => (_jsx(ArcFeature, { displayHeight: height, config: config, region: region, bpPerPx: bpPerPx, selectedFeatureId: selectedFeatureId, onFeatureClick: onFeatureClick, feature: f, semicircle: semicircle }, f.id())));
     return exportSVG ? (children) : (_jsx("svg", { width: width, height: height, children: children }));

package/esm/ArcRenderer/configSchema.d.ts

@@ -32,7 +32,7 @@ declare const ArcRenderer: import("@jbrowse/core/configuration/configurationSche
     displayMode: {
         type: string;
         defaultValue: string;
-        model: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        model: import("@jbrowse/mobx-state-tree").ISimpleType<"arcs" | "semicircles">;
         description: string;
     };
 }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;

package/esm/LinearArcDisplay/model.d.ts

@@ -1084,6 +1084,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
         onMouseMove(_: unknown, featureId?: string): void;
         onMouseLeave(_: unknown): void;
         onContextMenu(_: unknown): void;
+        onFeatureClick(_: unknown, featureId?: string): void;
     };
     renderProps(): any;
 } & {
@@ -1096,9 +1097,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
 } & {
     readonly displayModeSetting: any;
 } & {
-    readonly rendererConfig: {
-        displayMode: any;
-    };
+    readonly rendererConfig: any;
 } & {
     renderProps(): any;
 } & {

package/esm/LinearArcDisplay/model.js

@@ -26,12 +26,7 @@ export function stateModelFactory(configSchema) {
     }))
         .views(self => ({
         get rendererConfig() {
-            const configBlob = getConf(self, ['renderer']) || {};
-            const config = configBlob;
-            return {
-                ...config,
-                displayMode: self.displayModeSetting,
-            };
+            return self.configuration.renderer;
         },
     }))
         .views(self => {
@@ -41,6 +36,7 @@ export function stateModelFactory(configSchema) {
                 return {
                     ...superRenderProps(),
                     config: self.rendererConfig,
+                    displayMode: self.displayModeSetting,
                     height: self.height,
                 };
             },

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-arc",
-  "version": "4.1.13",
+  "version": "4.1.15",
   "type": "module",
   "description": "JBrowse 2 arc adapters, tracks, etc.",
   "keywords": [
@@ -22,14 +22,17 @@
   ],
   "dependencies": {
     "@gmod/vcf": "^7.0.0",
-    "@jbrowse/mobx-state-tree": "^5.5.0",
-    "@mui/icons-material": "^7.3.8",
-    "@mui/material": "^7.3.8",
+    "@jbrowse/mobx-state-tree": "^5.6.0",
+    "@mui/icons-material": "^7.3.9",
+    "@mui/material": "^7.3.9",
     "mobx": "^6.15.0",
     "mobx-react": "^9.2.1",
     "rxjs": "^7.8.2",
-    "@jbrowse/plugin-linear-genome-view": "^4.1.13",
-    "@jbrowse/core": "^4.1.13"
+    "@jbrowse/plugin-linear-genome-view": "^4.1.15",
+    "@jbrowse/core": "^4.1.15"
+  },
+  "devDependencies": {
+    "@jbrowse/jexl": "^3.0.2"
   },
   "peerDependencies": {
     "react": ">=18.0.0",