@jbrowse/plugin-variants 2.9.0 → 2.10.1

package/dist/ChordVariantDisplay/models/stateModelFactory.d.ts

@@ -3,7 +3,8 @@ import { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
 import { Feature } from '@jbrowse/core/util';
 /**
  * #stateModel ChordVariantDisplay
- * extends `BaseChordDisplay`
+ * extends
+ * - [BaseChordDisplay](../basechorddisplay)
  */
 declare const stateModelFactory: (configSchema: AnyConfigurationSchemaType) => import("mobx-state-tree").IModelType<{
     id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
@@ -117,7 +118,7 @@ declare const stateModelFactory: (configSchema: AnyConfigurationSchemaType) => i
 } & {
     afterAttach(): void;
 } & {
-    renderSvg(opts: import("@jbrowse/plugin-circular-view/src/CircularView/models/CircularView").ExportSvgOptions & {
+    renderSvg(opts: import("@jbrowse/plugin-circular-view/src/CircularView/models/model").ExportSvgOptions & {
         theme: import("@mui/material").ThemeOptions;
     }): Promise<import("react").JSX.Element>;
 } & {

package/dist/ChordVariantDisplay/models/stateModelFactory.js

@@ -7,7 +7,8 @@ const util_1 = require("@jbrowse/core/util");
 const tracks_1 = require("@jbrowse/core/util/tracks");
 /**
  * #stateModel ChordVariantDisplay
- * extends `BaseChordDisplay`
+ * extends
+ * - [BaseChordDisplay](../basechorddisplay)
  */
 const stateModelFactory = (configSchema) => {
     return mobx_state_tree_1.types

package/dist/LinearVariantDisplay/model.d.ts

@@ -4,8 +4,10 @@ import { Instance } from 'mobx-state-tree';
 import { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
 /**
  * #stateModel LinearVariantDisplay
- * extends `LinearBasicDisplay`
- * very similar to basic display, but provides custom widget on feature click
+ * similar to basic display, but provides custom widget on feature click
+ * extends
+ *
+ * - [LinearBasicDisplay](../linearbasicdisplay)
  */
 export default function stateModelFactory(configSchema: AnyConfigurationSchemaType): import("mobx-state-tree").IModelType<{
     id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
@@ -14,9 +16,6 @@ export default function stateModelFactory(configSchema: AnyConfigurationSchemaTy
 } & {
     heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
 } & {
-    /**
-     * #property
-     */
     userBpPerPxLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
     userByteSizeLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
 } & {
@@ -76,12 +75,16 @@ export default function stateModelFactory(configSchema: AnyConfigurationSchemaTy
             type: string;
             defaultValue: number;
             description: string;
-        };
+        }; /**
+         * #property
+         */
         height: {
             type: string;
             defaultValue: number;
             description: string;
-        };
+        }; /**
+         * #action
+         */
         mouseover: {
             type: string;
             description: string;
@@ -90,7 +93,9 @@ export default function stateModelFactory(configSchema: AnyConfigurationSchemaTy
         };
     }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
 } & {
-    type: import("mobx-state-tree").ISimpleType<"LinearBasicDisplay">;
+    type: import("mobx-state-tree").ISimpleType<"LinearBasicDisplay">; /**
+     * #property
+     */
     trackShowLabels: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
     trackShowDescriptions: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
     trackDisplayMode: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;

package/dist/LinearVariantDisplay/model.js

@@ -7,8 +7,10 @@ const plugin_linear_genome_view_1 = require("@jbrowse/plugin-linear-genome-view"
 const mobx_state_tree_1 = require("mobx-state-tree");
 /**
  * #stateModel LinearVariantDisplay
- * extends `LinearBasicDisplay`
- * very similar to basic display, but provides custom widget on feature click
+ * similar to basic display, but provides custom widget on feature click
+ * extends
+ *
+ * - [LinearBasicDisplay](../linearbasicdisplay)
  */
 function stateModelFactory(configSchema) {
     return mobx_state_tree_1.types

package/dist/StructuralVariantChordRenderer/Chord.d.ts

@@ -25,6 +25,6 @@ declare const Chord: ({ feature, blocksForRefs, radius, config, bezierRadius, se
     config: AnyConfigurationModel;
     bezierRadius: number;
     selected: boolean;
-    onClick: (feature: Feature, reg: AnyRegion, endBlock: AnyRegion, evt: unknown) => void;
+    onClick: (feat: Feature, reg: AnyRegion, end: AnyRegion, evt: unknown) => void;
 }) => React.JSX.Element | null;
 export default Chord;

package/dist/StructuralVariantChordRenderer/Chord.js

@@ -87,7 +87,7 @@ const Chord = (0, mobx_react_1.observer)(function Chord({ feature, blocksForRefs
         const hoverStrokeColor = (0, configuration_1.readConfObject)(config, 'strokeColorHover', {
             feature,
         });
-        return (react_1.default.createElement("path", { "data-testid": `chord-${feature.id()}`, d: ['M', ...startXY, 'Q', ...controlXY, ...endXY].join(' '), stroke: hovered ? hoverStrokeColor : strokeColor, strokeWidth: hovered ? 3 : 1, onClick: evt => {
+        return (react_1.default.createElement("path", { "data-testid": `chord-${feature.id()}`, cursor: "crosshair", fill: "none", d: ['M', ...startXY, 'Q', ...controlXY, ...endXY].join(' '), stroke: hovered ? hoverStrokeColor : strokeColor, strokeWidth: hovered ? 3 : 1, onClick: evt => {
                 if (endBlock && startBlock) {
                     onClick(feature, startBlock.region, endBlock.region, evt);
                 }

package/dist/StructuralVariantChordRenderer/ReactComponent.js

@@ -44,22 +44,10 @@ const StructuralVariantChordsReactComponent = (0, mobx_react_1.observer)(functio
         }
         return blocksForRefs;
     }, [blockDefinitions]);
-    const trackStyleId = `chords-${typeof jest !== 'undefined' ? 'test' : displayModel.id}`;
-    return (react_1.default.createElement("g", { id: trackStyleId, "data-testid": "structuralVariantChordRenderer" },
-        react_1.default.createElement("style", { 
-            // eslint-disable-next-line react/no-danger
-            dangerouslySetInnerHTML: {
-                __html: `
-          #${trackStyleId} > path {
-            cursor: crosshair;
-            fill: none;
-          }
-`,
-            } }),
-        [...features.values()].map(feature => {
-            const id = feature.id();
-            const selected = String(selectedFeatureId) === String(id);
-            return (react_1.default.createElement(Chord_1.default, { key: id, feature: feature, config: config, radius: radius, bezierRadius: bezierRadius, blocksForRefs: blocksForRefsMemo, selected: selected, onClick: onChordClick }));
-        })));
+    return (react_1.default.createElement("g", { id: `chords-${typeof jest !== 'undefined' ? 'test' : displayModel.id}`, "data-testid": "structuralVariantChordRenderer" }, [...features.values()].map(feature => {
+        const id = feature.id();
+        const selected = String(selectedFeatureId) === String(id);
+        return (react_1.default.createElement(Chord_1.default, { key: id, feature: feature, config: config, radius: radius, bezierRadius: bezierRadius, blocksForRefs: blocksForRefsMemo, selected: selected, onClick: onChordClick }));
+    })));
 });
 exports.default = StructuralVariantChordsReactComponent;

package/esm/ChordVariantDisplay/models/stateModelFactory.d.ts

@@ -3,7 +3,8 @@ import { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
 import { Feature } from '@jbrowse/core/util';
 /**
  * #stateModel ChordVariantDisplay
- * extends `BaseChordDisplay`
+ * extends
+ * - [BaseChordDisplay](../basechorddisplay)
  */
 declare const stateModelFactory: (configSchema: AnyConfigurationSchemaType) => import("mobx-state-tree").IModelType<{
     id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
@@ -117,7 +118,7 @@ declare const stateModelFactory: (configSchema: AnyConfigurationSchemaType) => i
 } & {
     afterAttach(): void;
 } & {
-    renderSvg(opts: import("@jbrowse/plugin-circular-view/src/CircularView/models/CircularView").ExportSvgOptions & {
+    renderSvg(opts: import("@jbrowse/plugin-circular-view/src/CircularView/models/model").ExportSvgOptions & {
         theme: import("@mui/material").ThemeOptions;
     }): Promise<import("react").JSX.Element>;
 } & {

package/esm/ChordVariantDisplay/models/stateModelFactory.js

@@ -5,7 +5,8 @@ import { getContainingView } from '@jbrowse/core/util';
 import { getParentRenderProps } from '@jbrowse/core/util/tracks';
 /**
  * #stateModel ChordVariantDisplay
- * extends `BaseChordDisplay`
+ * extends
+ * - [BaseChordDisplay](../basechorddisplay)
  */
 const stateModelFactory = (configSchema) => {
     return types

package/esm/LinearVariantDisplay/model.d.ts

@@ -4,8 +4,10 @@ import { Instance } from 'mobx-state-tree';
 import { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
 /**
  * #stateModel LinearVariantDisplay
- * extends `LinearBasicDisplay`
- * very similar to basic display, but provides custom widget on feature click
+ * similar to basic display, but provides custom widget on feature click
+ * extends
+ *
+ * - [LinearBasicDisplay](../linearbasicdisplay)
  */
 export default function stateModelFactory(configSchema: AnyConfigurationSchemaType): import("mobx-state-tree").IModelType<{
     id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
@@ -14,9 +16,6 @@ export default function stateModelFactory(configSchema: AnyConfigurationSchemaTy
 } & {
     heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
 } & {
-    /**
-     * #property
-     */
     userBpPerPxLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
     userByteSizeLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
 } & {
@@ -76,12 +75,16 @@ export default function stateModelFactory(configSchema: AnyConfigurationSchemaTy
             type: string;
             defaultValue: number;
             description: string;
-        };
+        }; /**
+         * #property
+         */
         height: {
             type: string;
             defaultValue: number;
             description: string;
-        };
+        }; /**
+         * #action
+         */
         mouseover: {
             type: string;
             description: string;
@@ -90,7 +93,9 @@ export default function stateModelFactory(configSchema: AnyConfigurationSchemaTy
         };
     }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
 } & {
-    type: import("mobx-state-tree").ISimpleType<"LinearBasicDisplay">;
+    type: import("mobx-state-tree").ISimpleType<"LinearBasicDisplay">; /**
+     * #property
+     */
     trackShowLabels: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
     trackShowDescriptions: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
     trackDisplayMode: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;

package/esm/LinearVariantDisplay/model.js

@@ -5,8 +5,10 @@ import { linearBasicDisplayModelFactory } from '@jbrowse/plugin-linear-genome-vi
 import { types } from 'mobx-state-tree';
 /**
  * #stateModel LinearVariantDisplay
- * extends `LinearBasicDisplay`
- * very similar to basic display, but provides custom widget on feature click
+ * similar to basic display, but provides custom widget on feature click
+ * extends
+ *
+ * - [LinearBasicDisplay](../linearbasicdisplay)
  */
 export default function stateModelFactory(configSchema) {
     return types

package/esm/StructuralVariantChordRenderer/Chord.d.ts

@@ -25,6 +25,6 @@ declare const Chord: ({ feature, blocksForRefs, radius, config, bezierRadius, se
     config: AnyConfigurationModel;
     bezierRadius: number;
     selected: boolean;
-    onClick: (feature: Feature, reg: AnyRegion, endBlock: AnyRegion, evt: unknown) => void;
+    onClick: (feat: Feature, reg: AnyRegion, end: AnyRegion, evt: unknown) => void;
 }) => React.JSX.Element | null;
 export default Chord;

package/esm/StructuralVariantChordRenderer/Chord.js

@@ -62,7 +62,7 @@ const Chord = observer(function Chord({ feature, blocksForRefs, radius, config,
         const hoverStrokeColor = readConfObject(config, 'strokeColorHover', {
             feature,
         });
-        return (React.createElement("path", { "data-testid": `chord-${feature.id()}`, d: ['M', ...startXY, 'Q', ...controlXY, ...endXY].join(' '), stroke: hovered ? hoverStrokeColor : strokeColor, strokeWidth: hovered ? 3 : 1, onClick: evt => {
+        return (React.createElement("path", { "data-testid": `chord-${feature.id()}`, cursor: "crosshair", fill: "none", d: ['M', ...startXY, 'Q', ...controlXY, ...endXY].join(' '), stroke: hovered ? hoverStrokeColor : strokeColor, strokeWidth: hovered ? 3 : 1, onClick: evt => {
                 if (endBlock && startBlock) {
                     onClick(feature, startBlock.region, endBlock.region, evt);
                 }

package/esm/StructuralVariantChordRenderer/ReactComponent.js

@@ -16,22 +16,10 @@ const StructuralVariantChordsReactComponent = observer(function ({ features, con
         }
         return blocksForRefs;
     }, [blockDefinitions]);
-    const trackStyleId = `chords-${typeof jest !== 'undefined' ? 'test' : displayModel.id}`;
-    return (React.createElement("g", { id: trackStyleId, "data-testid": "structuralVariantChordRenderer" },
-        React.createElement("style", { 
-            // eslint-disable-next-line react/no-danger
-            dangerouslySetInnerHTML: {
-                __html: `
-          #${trackStyleId} > path {
-            cursor: crosshair;
-            fill: none;
-          }
-`,
-            } }),
-        [...features.values()].map(feature => {
-            const id = feature.id();
-            const selected = String(selectedFeatureId) === String(id);
-            return (React.createElement(Chord, { key: id, feature: feature, config: config, radius: radius, bezierRadius: bezierRadius, blocksForRefs: blocksForRefsMemo, selected: selected, onClick: onChordClick }));
-        })));
+    return (React.createElement("g", { id: `chords-${typeof jest !== 'undefined' ? 'test' : displayModel.id}`, "data-testid": "structuralVariantChordRenderer" }, [...features.values()].map(feature => {
+        const id = feature.id();
+        const selected = String(selectedFeatureId) === String(id);
+        return (React.createElement(Chord, { key: id, feature: feature, config: config, radius: radius, bezierRadius: bezierRadius, blocksForRefs: blocksForRefsMemo, selected: selected, onClick: onChordClick }));
+    })));
 });
 export default StructuralVariantChordsReactComponent;

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-variants",
-  "version": "2.9.0",
+  "version": "2.10.1",
   "description": "JBrowse 2 variant adapters, tracks, etc.",
   "keywords": [
     "jbrowse",
@@ -63,5 +63,5 @@
   "distModule": "esm/index.js",
   "srcModule": "src/index.ts",
   "module": "esm/index.js",
-  "gitHead": "a50b6f67cf8c8f3c65a7b8cd858de2fcca1f2909"
+  "gitHead": "442b5f87efddfdf4ccf520b4d9dd01ddd370cb07"
 }