npm - @jbrowse/plugin-circular-view - Versions diffs - 2.1.6 → 2.2.0 - Mend

@jbrowse/plugin-circular-view 2.1.6 → 2.2.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Files changed (25) hide show

package/dist/CircularView/models/CircularView.js.map CHANGED Viewed

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package/esm/BaseChordDisplay/models/BaseChordDisplayModel.d.ts CHANGED Viewed

@@ -69,30 +69,56 @@ export declare const BaseChordDisplayModel: import("mobx-state-tree").IModelType
     renderingComponent: AnyReactComponentType | undefined;
     refNameMap: Record<string, string> | undefined;
 } & {
+    /**
+     * #action
+     */
     onChordClick(feature: Feature): void;
 } & {
+    /**
+     * #getter
+     */
     readonly blockDefinitions: any;
+    /**
+     * #method
+     */
     renderProps(): any;
     /**
+     * #getter
      * the pluggable element type object for this diplay's
      * renderer
      */
     readonly rendererType: RendererType;
+    /**
+     * #method
+     */
     isCompatibleWithRenderer(renderer: RendererType): boolean;
     /**
+     * #getter
      * returns a string feature ID if the globally-selected object
      * is probably a feature
      */
     readonly selectedFeatureId: string | undefined;
 } & {
+    /**
+     * #action
+     */
     renderStarted(): void;
+    /**
+     * #action
+     */
     renderSuccess({ message, data, reactElement, renderingComponent, }: {
         message: string;
         data: any;
         reactElement: React.ReactElement;
         renderingComponent: AnyReactComponentType;
     }): void;
+    /**
+     * #action
+     */
     renderError(error: unknown): void;
+    /**
+     * #action
+     */
     setRefNameMap(refNameMap: Record<string, string>): void;
 } & {
     afterAttach(): void;

package/esm/BaseChordDisplay/models/BaseChordDisplayModel.js CHANGED Viewed

@@ -5,175 +5,215 @@ import { getContainingView, getSession, getEnv, makeAbortableReaction, } from '@
 import { isFeature } from '@jbrowse/core/util/simpleFeature';
 import { getParentRenderProps, getRpcSessionId, getTrackAssemblyNames, } from '@jbrowse/core/util/tracks';
 import { getParent, isAlive, types } from 'mobx-state-tree';
+// locals
 import { renderReactionData, renderReactionEffect } from './renderReaction';
-export const BaseChordDisplayModel = types
-    .compose('BaseChordDisplay', BaseDisplay, types.model({
-    bezierRadiusRatio: 0.1,
-    assemblyName: types.maybe(types.string),
-}))
-    .volatile(() => {
-    return {
-        // NOTE: all this volatile stuff has to be filled in at once
-        // so that it stays consistent
-        filled: false,
-        reactElement: undefined,
-        data: undefined,
-        message: '',
-        renderingComponent: undefined,
-        refNameMap: undefined,
-    };
-})
-    .actions(self => {
-    const { pluginManager } = getEnv(self);
-    const track = self;
-    return {
-        onChordClick(feature) {
-            getConf(self, 'onChordClick', { feature, track, pluginManager });
-        },
-    };
-})
-    .views(self => ({
-    get blockDefinitions() {
-        const origSlices = getContainingView(self)
-            .staticSlices;
-        if (!self.refNameMap) {
-            return origSlices;
-        }
-        const slices = JSON.parse(JSON.stringify(origSlices));
-        // eslint-disable-next-line @typescript-eslint/no-explicit-any
-        slices.forEach((slice) => {
-            const regions = slice.region.elided
-                ? slice.region.regions
-                : [slice.region];
-            regions.forEach((region) => {
-                var _a;
-                const renamed = (_a = self.refNameMap) === null || _a === void 0 ? void 0 : _a[region.refName];
-                if (renamed && region.refName !== renamed) {
-                    region.refName = renamed;
-                }
-            });
-        });
-        return slices;
-    },
-    renderProps() {
-        const view = getContainingView(self);
+/**
+ * #stateModel BaseChordDisplay
+ * extends `BaseDisplay`
+ */
+function stateModelFactory() {
+    return types
+        .compose('BaseChordDisplay', BaseDisplay, types.model({
+        /**
+         * #property
+         */
+        bezierRadiusRatio: 0.1,
+        /**
+         * #property
+         */
+        assemblyName: types.maybe(types.string),
+    }))
+        .volatile(() => {
         return {
-            ...getParentRenderProps(self),
-            rpcDriverName: self.rpcDriverName,
-            displayModel: self,
-            bezierRadius: view.radiusPx * self.bezierRadiusRatio,
-            radius: view.radiusPx,
-            blockDefinitions: this.blockDefinitions,
-            onChordClick: self.onChordClick,
+            // NOTE: all this volatile stuff has to be filled in at once
+            // so that it stays consistent
+            filled: false,
+            reactElement: undefined,
+            data: undefined,
+            message: '',
+            renderingComponent: undefined,
+            refNameMap: undefined,
         };
-    },
-    /**
-     * the pluggable element type object for this diplay's
-     * renderer
-     */
-    get rendererType() {
-        const display = self;
+    })
+        .actions(self => {
         const { pluginManager } = getEnv(self);
-        const ThisRendererType = pluginManager.getRendererType(self.rendererTypeName);
-        if (!ThisRendererType) {
-            throw new Error(`renderer "${display.rendererTypeName}" not found`);
-        }
-        if (!ThisRendererType.ReactComponent) {
-            throw new Error(`renderer ${display.rendererTypeName} has no ReactComponent, it may not be completely implemented yet`);
-        }
-        return ThisRendererType;
-    },
-    isCompatibleWithRenderer(renderer) {
-        return !!(renderer instanceof CircularChordRendererType);
-    },
-    /**
-     * returns a string feature ID if the globally-selected object
-     * is probably a feature
-     */
-    get selectedFeatureId() {
-        if (!isAlive(self)) {
-            return undefined;
-        }
-        const session = getSession(self);
-        if (!session) {
+        const track = self;
+        return {
+            /**
+             * #action
+             */
+            onChordClick(feature) {
+                getConf(self, 'onChordClick', { feature, track, pluginManager });
+            },
+        };
+    })
+        .views(self => ({
+        /**
+         * #getter
+         */
+        get blockDefinitions() {
+            const origSlices = getContainingView(self)
+                .staticSlices;
+            if (!self.refNameMap) {
+                return origSlices;
+            }
+            const slices = JSON.parse(JSON.stringify(origSlices));
+            // eslint-disable-next-line @typescript-eslint/no-explicit-any
+            slices.forEach((slice) => {
+                const regions = slice.region.elided
+                    ? slice.region.regions
+                    : [slice.region];
+                regions.forEach((region) => {
+                    var _a;
+                    const renamed = (_a = self.refNameMap) === null || _a === void 0 ? void 0 : _a[region.refName];
+                    if (renamed && region.refName !== renamed) {
+                        region.refName = renamed;
+                    }
+                });
+            });
+            return slices;
+        },
+        /**
+         * #method
+         */
+        renderProps() {
+            const view = getContainingView(self);
+            return {
+                ...getParentRenderProps(self),
+                rpcDriverName: self.rpcDriverName,
+                displayModel: self,
+                bezierRadius: view.radiusPx * self.bezierRadiusRatio,
+                radius: view.radiusPx,
+                blockDefinitions: this.blockDefinitions,
+                onChordClick: self.onChordClick,
+            };
+        },
+        /**
+         * #getter
+         * the pluggable element type object for this diplay's
+         * renderer
+         */
+        get rendererType() {
+            const display = self;
+            const { pluginManager } = getEnv(self);
+            const ThisRendererType = pluginManager.getRendererType(self.rendererTypeName);
+            if (!ThisRendererType) {
+                throw new Error(`renderer "${display.rendererTypeName}" not found`);
+            }
+            if (!ThisRendererType.ReactComponent) {
+                throw new Error(`renderer ${display.rendererTypeName} has no ReactComponent, it may not be completely implemented yet`);
+            }
+            return ThisRendererType;
+        },
+        /**
+         * #method
+         */
+        isCompatibleWithRenderer(renderer) {
+            return !!(renderer instanceof CircularChordRendererType);
+        },
+        /**
+         * #getter
+         * returns a string feature ID if the globally-selected object
+         * is probably a feature
+         */
+        get selectedFeatureId() {
+            if (!isAlive(self)) {
+                return undefined;
+            }
+            const session = getSession(self);
+            if (!session) {
+                return undefined;
+            }
+            const { selection } = session;
+            // does it quack like a feature?
+            if (isFeature(selection)) {
+                return selection.id();
+            }
             return undefined;
-        }
-        const { selection } = session;
-        // does it quack like a feature?
-        if (isFeature(selection)) {
-            return selection.id();
-        }
-        return undefined;
-    },
-}))
-    .actions(self => ({
-    renderStarted() {
-        self.filled = false;
-        self.message = '';
-        self.reactElement = undefined;
-        self.data = undefined;
-        self.error = undefined;
-        self.renderingComponent = undefined;
-    },
-    renderSuccess({ message, data, reactElement, renderingComponent, }) {
-        if (message) {
+        },
+    }))
+        .actions(self => ({
+        /**
+         * #action
+         */
+        renderStarted() {
             self.filled = false;
-            self.message = message;
+            self.message = '';
             self.reactElement = undefined;
             self.data = undefined;
             self.error = undefined;
             self.renderingComponent = undefined;
-        }
-        else {
-            self.filled = true;
+        },
+        /**
+         * #action
+         */
+        renderSuccess({ message, data, reactElement, renderingComponent, }) {
+            if (message) {
+                self.filled = false;
+                self.message = message;
+                self.reactElement = undefined;
+                self.data = undefined;
+                self.error = undefined;
+                self.renderingComponent = undefined;
+            }
+            else {
+                self.filled = true;
+                self.message = '';
+                self.reactElement = reactElement;
+                self.data = data;
+                self.error = undefined;
+                self.renderingComponent = renderingComponent;
+            }
+        },
+        /**
+         * #action
+         */
+        renderError(error) {
+            console.error(error);
+            // the rendering failed for some reason
+            self.filled = false;
             self.message = '';
-            self.reactElement = reactElement;
-            self.data = data;
-            self.error = undefined;
-            self.renderingComponent = renderingComponent;
-        }
-    },
-    renderError(error) {
-        console.error(error);
-        // the rendering failed for some reason
-        self.filled = false;
-        self.message = '';
-        self.reactElement = undefined;
-        self.data = undefined;
-        self.error = error;
-        self.renderingComponent = undefined;
-    },
-    setRefNameMap(refNameMap) {
-        self.refNameMap = refNameMap;
-    },
-}))
-    .actions(self => ({
-    afterAttach() {
-        makeAbortableReaction(self, renderReactionData,
-        // @ts-ignore
-        renderReactionEffect, {
-            name: `${self.type} ${self.id} rendering`,
-            // delay: self.renderDelay || 300,
-            fireImmediately: true,
-        }, self.renderStarted, self.renderSuccess, self.renderError);
-        makeAbortableReaction(self, () => ({
-            assemblyNames: getTrackAssemblyNames(self.parentTrack),
+            self.reactElement = undefined;
+            self.data = undefined;
+            self.error = error;
+            self.renderingComponent = undefined;
+        },
+        /**
+         * #action
+         */
+        setRefNameMap(refNameMap) {
+            self.refNameMap = refNameMap;
+        },
+    }))
+        .actions(self => ({
+        afterAttach() {
+            makeAbortableReaction(self, renderReactionData,
+            // @ts-ignore
+            renderReactionEffect, {
+                name: `${self.type} ${self.id} rendering`,
+                // delay: self.renderDelay || 300,
+                fireImmediately: true,
+            }, self.renderStarted, self.renderSuccess, self.renderError);
+            makeAbortableReaction(self, () => ({
+                assemblyNames: getTrackAssemblyNames(self.parentTrack),
+                // eslint-disable-next-line @typescript-eslint/no-explicit-any
+                adapter: getConf(getParent(self, 2), 'adapter'),
+                assemblyManager: getSession(self).assemblyManager,
+            }),
             // eslint-disable-next-line @typescript-eslint/no-explicit-any
-            adapter: getConf(getParent(self, 2), 'adapter'),
-            assemblyManager: getSession(self).assemblyManager,
-        }),
-        // eslint-disable-next-line @typescript-eslint/no-explicit-any
-        async ({ assemblyNames, adapter, assemblyManager }, signal) => {
-            return assemblyManager.getRefNameMapForAdapter(adapter, assemblyNames[0], { signal, sessionId: getRpcSessionId(self) });
-        }, {
-            name: `${self.type} ${self.id} getting refNames`,
-            fireImmediately: true,
-        }, () => { }, refNameMap => {
-            self.setRefNameMap(refNameMap);
-        }, error => {
-            console.error(error);
-            self.setError(error);
-        });
-    },
-}));
+            async ({ assemblyNames, adapter, assemblyManager }, signal) => {
+                return assemblyManager.getRefNameMapForAdapter(adapter, assemblyNames[0], { signal, sessionId: getRpcSessionId(self) });
+            }, {
+                name: `${self.type} ${self.id} getting refNames`,
+                fireImmediately: true,
+            }, () => { }, refNameMap => {
+                self.setRefNameMap(refNameMap);
+            }, error => {
+                console.error(error);
+                self.setError(error);
+            });
+        },
+    }));
+}
+export const BaseChordDisplayModel = stateModelFactory();
 //# sourceMappingURL=BaseChordDisplayModel.js.map

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package/esm/BaseChordDisplay/models/baseChordDisplayConfig.js CHANGED Viewed

@@ -1,11 +1,23 @@
 import { ConfigurationSchema } from '@jbrowse/core/configuration';
+/**
+ * #config BaseChordDisplay
+ */
+function x() { } // eslint-disable-line @typescript-eslint/no-unused-vars
 const baseChordDisplayConfig = ConfigurationSchema('BaseChordDisplay', {
+    /**
+     * #slot
+     */
     onChordClick: {
         type: 'boolean',
         description: 'callback that should be run when a chord in the track is clicked',
         defaultValue: false,
         contextVariable: ['feature', 'track', 'pluginManager'],
     },
-}, { explicitIdentifier: 'displayId' });
+}, {
+    /**
+     * #identifier
+     */
+    explicitIdentifier: 'displayId',
+});
 export { baseChordDisplayConfig };
 //# sourceMappingURL=baseChordDisplayConfig.js.map

package/esm/BaseChordDisplay/models/baseChordDisplayConfig.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"baseChordDisplayConfig.js","sourceRoot":"","sources":["../../../src/BaseChordDisplay/models/baseChordDisplayConfig.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AAEjE,MAAM,sBAAsB,GAAG,mBAAmB,CAChD,kBAAkB,EAClB;IACE,YAAY,EAAE;QACZ,IAAI,EAAE,SAAS;QACf,WAAW,EACT,kEAAkE;QACpE,YAAY,EAAE,KAAK;QACnB,eAAe,EAAE,CAAC,SAAS,EAAE,OAAO,EAAE,eAAe,CAAC;KACvD;CACF,EACD,~~EAAE,~~kBAAkB,EAAE,WAAW,~~EAAE~~,~~CACpC,~~CAAA;AAED,OAAO,EAAE,sBAAsB,EAAE,CAAA"}
1	+ {"version":3,"file":"baseChordDisplayConfig.js","sourceRoot":"","sources":["../../../src/BaseChordDisplay/models/baseChordDisplayConfig.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AAEjE;;GAEG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,sBAAsB,GAAG,mBAAmB,CAChD,kBAAkB,EAClB;IACE;;OAEG;IACH,YAAY,EAAE;QACZ,IAAI,EAAE,SAAS;QACf,WAAW,EACT,kEAAkE;QACpE,YAAY,EAAE,KAAK;QACnB,eAAe,EAAE,CAAC,SAAS,EAAE,OAAO,EAAE,eAAe,CAAC;KACvD;CACF,EACD;IACE;;OAEG;IACH,kBAAkB,EAAE,WAAW;CAChC,CACF,CAAA;AAED,OAAO,EAAE,sBAAsB,EAAE,CAAA"}

package/esm/CircularView/components/ImportForm.js CHANGED Viewed

@@ -34,7 +34,7 @@ const ImportForm = observer(({ model }) => {
                         setSelectedAsm(val);
                     }, session: session, selected: selectedAsm })),
             React.createElement(Grid, { item: true },
-                React.createElement(Button, { disabled: !(regions === null || regions === void 0 ? void 0 : regions.length), onClick: () => model.setDisplayedRegions(regions), variant: "contained", color: "primary" }, regions.length ? 'Open' : 'Loading…')))));
+                React.createElement(Button, { disabled: !(regions === null || regions === void 0 ? void 0 : regions.length), onClick: () => model.setDisplayedRegions(regions), variant: "contained", color: "primary" }, regions.length ? 'Open' : 'Loading&hellip;')))));
 });
 export default ImportForm;
 //# sourceMappingURL=ImportForm.js.map

package/esm/CircularView/components/ImportForm.js.map CHANGED Viewed

	@@ -1 +1 @@
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