@jbrowse/plugin-linear-genome-view 2.4.2 → 2.6.1

package/dist/BaseLinearDisplay/models/FeatureDensityMixin.js

@@ -0,0 +1,190 @@
+"use strict";
+var __importDefault = (this && this.__importDefault) || function (mod) {
+    return (mod && mod.__esModule) ? mod : { "default": mod };
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+/* eslint-disable @typescript-eslint/no-explicit-any */
+const react_1 = __importDefault(require("react"));
+const configuration_1 = require("@jbrowse/core/configuration");
+const util_1 = require("@jbrowse/core/util");
+const mobx_1 = require("mobx");
+const mobx_state_tree_1 = require("mobx-state-tree");
+const TooLargeMessage_1 = __importDefault(require("../components/TooLargeMessage"));
+const util_2 = require("./util");
+const autorunFeatureDensityStats_1 = __importDefault(require("./autorunFeatureDensityStats"));
+/**
+ * #stateModel FeatureDensityMixin
+ * #category display
+ */
+function FeatureDensityMixin() {
+    return mobx_state_tree_1.types
+        .model({
+        /**
+         * #property
+         */
+        userBpPerPxLimit: mobx_state_tree_1.types.maybe(mobx_state_tree_1.types.number),
+        /**
+         * #property
+         */
+        userByteSizeLimit: mobx_state_tree_1.types.maybe(mobx_state_tree_1.types.number),
+    })
+        .volatile(() => ({
+        featureDensityStatsP: undefined,
+        featureDensityStats: undefined,
+        currStatsBpPerPx: 0,
+    }))
+        .views(self => ({
+        /**
+         * #getter
+         */
+        get currentBytesRequested() {
+            var _a;
+            return ((_a = self.featureDensityStats) === null || _a === void 0 ? void 0 : _a.bytes) || 0;
+        },
+        /**
+         * #getter
+         */
+        get currentFeatureScreenDensity() {
+            var _a;
+            const view = (0, util_1.getContainingView)(self);
+            return (((_a = self.featureDensityStats) === null || _a === void 0 ? void 0 : _a.featureDensity) || 0) * view.bpPerPx;
+        },
+        /**
+         * #getter
+         */
+        get maxFeatureScreenDensity() {
+            // @ts-expect-error
+            return (0, configuration_1.getConf)(self, 'maxFeatureScreenDensity');
+        },
+        /**
+         * #getter
+         */
+        get featureDensityStatsReady() {
+            const view = (0, util_1.getContainingView)(self);
+            return (self.currStatsBpPerPx === view.bpPerPx &&
+                (!!self.featureDensityStats || !!self.userBpPerPxLimit));
+        },
+        /**
+         * #getter
+         */
+        get maxAllowableBytes() {
+            var _a;
+            return (self.userByteSizeLimit ||
+                ((_a = self.featureDensityStats) === null || _a === void 0 ? void 0 : _a.fetchSizeLimit) ||
+                // @ts-expect-error
+                (0, configuration_1.getConf)(self, 'fetchSizeLimit'));
+        },
+    }))
+        .actions(self => ({
+        afterAttach() {
+            (0, mobx_state_tree_1.addDisposer)(self, (0, mobx_1.autorun)(() => (0, autorunFeatureDensityStats_1.default)(self)));
+        },
+    }))
+        .actions(self => ({
+        /**
+         * #action
+         */
+        setCurrStatsBpPerPx(n) {
+            self.currStatsBpPerPx = n;
+        },
+        /**
+         * #action
+         */
+        setFeatureDensityStatsLimit(stats) {
+            const view = (0, util_1.getContainingView)(self);
+            if (stats === null || stats === void 0 ? void 0 : stats.bytes) {
+                self.userByteSizeLimit = stats.bytes;
+            }
+            else {
+                self.userBpPerPxLimit = view.bpPerPx;
+            }
+        },
+        /**
+         * #action
+         */
+        async getFeatureDensityStats() {
+            if (!self.featureDensityStatsP) {
+                self.featureDensityStatsP = (0, util_2.getFeatureDensityStatsPre)(self).catch(e => {
+                    if ((0, mobx_state_tree_1.isAlive)(self)) {
+                        this.setFeatureDensityStatsP(undefined);
+                    }
+                    throw e;
+                });
+            }
+            return self.featureDensityStatsP;
+        },
+        /**
+         * #action
+         */
+        setFeatureDensityStatsP(arg) {
+            self.featureDensityStatsP = arg;
+        },
+        /**
+         * #action
+         */
+        setFeatureDensityStats(featureDensityStats) {
+            self.featureDensityStats = featureDensityStats;
+        },
+        /**
+         * #action
+         */
+        clearFeatureDensityStats() {
+            self.featureDensityStatsP = undefined;
+            self.featureDensityStats = undefined;
+        },
+    }))
+        .views(self => ({
+        /**
+         * #getter
+         * region is too large if:
+         * - stats are ready
+         * - region is greater than 20kb (don't warn when zoomed in less than that)
+         * - and bytes is greater than max allowed bytes or density greater than max
+         *   density
+         */
+        get regionTooLarge() {
+            const view = (0, util_1.getContainingView)(self);
+            if (!self.featureDensityStatsReady ||
+                view.dynamicBlocks.totalBp < 20000) {
+                return false;
+            }
+            return (self.currentBytesRequested > self.maxAllowableBytes ||
+                (self.userBpPerPxLimit
+                    ? view.bpPerPx > self.userBpPerPxLimit
+                    : self.currentFeatureScreenDensity > self.maxFeatureScreenDensity));
+        },
+        /**
+         * #getter
+         * only shows a message of bytes requested is defined, the feature density
+         * based stats don't produce any helpful message besides to zoom in
+         */
+        get regionTooLargeReason() {
+            const req = self.currentBytesRequested;
+            const max = self.maxAllowableBytes;
+            return req && req > max
+                ? `Requested too much data (${(0, util_2.getDisplayStr)(req)})`
+                : '';
+        },
+    }))
+        .views(self => ({
+        /**
+         * #method
+         */
+        regionCannotBeRenderedText(_region) {
+            return self.regionTooLarge ? 'Force load to see features' : '';
+        },
+        /**
+         * #method
+         * @param region -
+         * @returns falsy if the region is fine to try rendering. Otherwise,
+         *  return a react node + string of text.
+         *  string of text describes why it cannot be rendered
+         *  react node allows user to force load at current setting
+         */
+        regionCannotBeRendered(_region) {
+            return self.regionTooLarge ? (react_1.default.createElement(TooLargeMessage_1.default, { model: self })) : null;
+        },
+    }));
+}
+exports.default = FeatureDensityMixin;
+//# sourceMappingURL=FeatureDensityMixin.js.map

package/dist/BaseLinearDisplay/models/FeatureDensityMixin.js.map

@@ -0,0 +1 @@
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package/dist/BaseLinearDisplay/models/TrackHeightMixin.d.ts

@@ -0,0 +1,30 @@
+/**
+ * #stateModel TrackHeightMixin
+ * #category display
+ */
+export default function TrackHeightMixin(): import("mobx-state-tree").IModelType<{
+    /**
+     * #property
+     */
+    heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
+}, {
+    /**
+     * #property
+     */
+    scrollTop: number;
+} & {
+    readonly height: number;
+} & {
+    /**
+     * #action
+     */
+    setScrollTop(scrollTop: number): void;
+    /**
+     * #action
+     */
+    setHeight(displayHeight: number): number;
+    /**
+     * #action
+     */
+    resizeHeight(distance: number): number;
+}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;

package/dist/BaseLinearDisplay/models/TrackHeightMixin.js

@@ -0,0 +1,56 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+const configuration_1 = require("@jbrowse/core/configuration");
+const mobx_state_tree_1 = require("mobx-state-tree");
+const minDisplayHeight = 20;
+/**
+ * #stateModel TrackHeightMixin
+ * #category display
+ */
+function TrackHeightMixin() {
+    return mobx_state_tree_1.types
+        .model({
+        /**
+         * #property
+         */
+        heightPreConfig: mobx_state_tree_1.types.maybe(mobx_state_tree_1.types.refinement('displayHeight', mobx_state_tree_1.types.number, n => n >= minDisplayHeight)),
+    })
+        .volatile(() => ({
+        /**
+         * #property
+         */
+        scrollTop: 0,
+    }))
+        .views(self => ({
+        get height() {
+            var _a;
+            // @ts-expect-error
+            return (_a = self.heightPreConfig) !== null && _a !== void 0 ? _a : (0, configuration_1.getConf)(self, 'height');
+        },
+    }))
+        .actions(self => ({
+        /**
+         * #action
+         */
+        setScrollTop(scrollTop) {
+            self.scrollTop = scrollTop;
+        },
+        /**
+         * #action
+         */
+        setHeight(displayHeight) {
+            self.heightPreConfig = Math.max(displayHeight, minDisplayHeight);
+            return self.height;
+        },
+        /**
+         * #action
+         */
+        resizeHeight(distance) {
+            const oldHeight = self.height;
+            const newHeight = this.setHeight(self.height + distance);
+            return newHeight - oldHeight;
+        },
+    }));
+}
+exports.default = TrackHeightMixin;
+//# sourceMappingURL=TrackHeightMixin.js.map

package/dist/BaseLinearDisplay/models/TrackHeightMixin.js.map

@@ -0,0 +1 @@
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package/dist/BaseLinearDisplay/models/autorunFeatureDensityStats.d.ts

@@ -0,0 +1,2 @@
+import { BaseLinearDisplayModel } from './BaseLinearDisplayModel';
+export default function autorunFeatureDensityStats(self: BaseLinearDisplayModel): Promise<void>;

package/dist/BaseLinearDisplay/models/autorunFeatureDensityStats.js

@@ -0,0 +1,42 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+const util_1 = require("@jbrowse/core/util");
+const mobx_state_tree_1 = require("mobx-state-tree");
+// stats estimation autorun calls getFeatureDensityStats against the data
+// adapter which by default uses featureDensity, but can also respond with a
+// byte size estimate and fetch size limit (data adapter can define what is too
+// much data)
+async function autorunFeatureDensityStats(self) {
+    var _a;
+    try {
+        const view = (0, util_1.getContainingView)(self);
+        // extra check for contentBlocks.length
+        // https://github.com/GMOD/jbrowse-components/issues/2694
+        if (!view.initialized ||
+            !view.staticBlocks.contentBlocks.length ||
+            view.bpPerPx === self.currStatsBpPerPx ||
+            self.error) {
+            return;
+        }
+        // don't re-estimate featureDensity even if zoom level changes,
+        // jbrowse1-style assume it's sort of representative
+        if (((_a = self.featureDensityStats) === null || _a === void 0 ? void 0 : _a.featureDensity) !== undefined) {
+            self.setCurrStatsBpPerPx(view.bpPerPx);
+            return;
+        }
+        self.clearFeatureDensityStats();
+        self.setCurrStatsBpPerPx(view.bpPerPx);
+        const stats = await self.getFeatureDensityStats();
+        if ((0, mobx_state_tree_1.isAlive)(self)) {
+            self.setFeatureDensityStats(stats);
+        }
+    }
+    catch (e) {
+        if (!(0, util_1.isAbortException)(e) && (0, mobx_state_tree_1.isAlive)(self)) {
+            console.error(e);
+            self.setError(e);
+        }
+    }
+}
+exports.default = autorunFeatureDensityStats;
+//# sourceMappingURL=autorunFeatureDensityStats.js.map

package/dist/BaseLinearDisplay/models/autorunFeatureDensityStats.js.map

@@ -0,0 +1 @@
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package/dist/BaseLinearDisplay/models/configSchema.d.ts

@@ -1,2 +1,36 @@
-declare const baseLinearDisplayConfigSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+declare const baseLinearDisplayConfigSchema: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    /**
+     * #slot
+     */
+    maxFeatureScreenDensity: {
+        type: string;
+        description: string;
+        defaultValue: number;
+    };
+    /**
+     * #slot
+     */
+    fetchSizeLimit: {
+        type: string;
+        defaultValue: number;
+        description: string;
+    };
+    /**
+     * #slot
+     */
+    height: {
+        type: string;
+        defaultValue: number;
+        description: string;
+    };
+    /**
+     * #slot
+     */
+    mouseover: {
+        type: string;
+        description: string;
+        defaultValue: string;
+        contextVariable: string[];
+    };
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
 export default baseLinearDisplayConfigSchema;

package/dist/BaseLinearDisplay/models/configSchema.js

@@ -3,6 +3,7 @@ Object.defineProperty(exports, "__esModule", { value: true });
 const configuration_1 = require("@jbrowse/core/configuration");
 /**
  * #config BaseLinearDisplay
+ * #category display
  * `BaseLinearDisplay` is a "base" config that is extended by classes like
  * `LinearBasicDisplay` (used for feature tracks, etc) and `LinearBareDisplay`
  * (more stripped down than even the basic display, not commonly used)
@@ -33,6 +34,15 @@ const baseLinearDisplayConfigSchema = (0, configuration_1.ConfigurationSchema)('
         defaultValue: 100,
         description: 'default height for the track',
     },
+    /**
+     * #slot
+     */
+    mouseover: {
+        type: 'string',
+        description: 'text to display when the cursor hovers over a feature',
+        defaultValue: `jexl:get(feature,'name')`,
+        contextVariable: ['feature'],
+    },
 }, {
     /**
      * #identifier

package/dist/BaseLinearDisplay/models/configSchema.js.map

@@ -1 +1 @@
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+{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../../src/BaseLinearDisplay/models/configSchema.ts"],"names":[],"mappings":";;AAAA,+DAAiE;AAEjE;;;;;;GAMG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,6BAA6B,GAAG,IAAA,mCAAmB,EACvD,mBAAmB,EACnB;IACE;;OAEG;IACH,uBAAuB,EAAE;QACvB,IAAI,EAAE,QAAQ;QACd,WAAW,EACT,qGAAqG;QACvG,YAAY,EAAE,GAAG;KAClB;IACD;;OAEG;IACH,cAAc,EAAE;QACd,IAAI,EAAE,QAAQ;QACd,YAAY,EAAE,OAAS;QACvB,WAAW,EACT,4FAA4F;KAC/F;IACD;;OAEG;IACH,MAAM,EAAE;QACN,IAAI,EAAE,QAAQ;QACd,YAAY,EAAE,GAAG;QACjB,WAAW,EAAE,8BAA8B;KAC5C;IACD;;OAEG;IACH,SAAS,EAAE;QACT,IAAI,EAAE,QAAQ;QACd,WAAW,EAAE,uDAAuD;QACpE,YAAY,EAAE,0BAA0B;QAExC,eAAe,EAAE,CAAC,SAAS,CAAC;KAC7B;CACF,EACD;IACE;;OAEG;IACH,kBAAkB,EAAE,WAAW;CAChC,CACF,CAAA;AAED,kBAAe,6BAA6B,CAAA"}

package/dist/BaseLinearDisplay/models/renderSvg.d.ts

@@ -0,0 +1,8 @@
+import React from 'react';
+import { ThemeOptions } from '@mui/material';
+import { ExportSvgOptions } from '../../LinearGenomeView';
+import { BaseLinearDisplayModel } from './BaseLinearDisplayModel';
+export default function renderBaseLinearDisplaySvg(self: BaseLinearDisplayModel, opts: ExportSvgOptions & {
+    overrideHeight: number;
+    theme: ThemeOptions;
+}): Promise<React.JSX.Element>;

package/dist/BaseLinearDisplay/models/renderSvg.js

@@ -0,0 +1,83 @@
+"use strict";
+var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    var desc = Object.getOwnPropertyDescriptor(m, k);
+    if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
+      desc = { enumerable: true, get: function() { return m[k]; } };
+    }
+    Object.defineProperty(o, k2, desc);
+}) : (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    o[k2] = m[k];
+}));
+var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
+    Object.defineProperty(o, "default", { enumerable: true, value: v });
+}) : function(o, v) {
+    o["default"] = v;
+});
+var __importStar = (this && this.__importStar) || function (mod) {
+    if (mod && mod.__esModule) return mod;
+    var result = {};
+    if (mod != null) for (var k in mod) if (k !== "default" && Object.prototype.hasOwnProperty.call(mod, k)) __createBinding(result, mod, k);
+    __setModuleDefault(result, mod);
+    return result;
+};
+var __importDefault = (this && this.__importDefault) || function (mod) {
+    return (mod && mod.__esModule) ? mod : { "default": mod };
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+const react_1 = __importDefault(require("react"));
+const util_1 = require("@jbrowse/core/util");
+const serverSideRenderedBlock_1 = __importStar(require("./serverSideRenderedBlock"));
+const util_2 = require("./util");
+async function renderBaseLinearDisplaySvg(self, opts) {
+    const { height, id } = self;
+    const { overrideHeight } = opts;
+    const view = (0, util_1.getContainingView)(self);
+    const { offsetPx: viewOffsetPx, roundedDynamicBlocks, width } = view;
+    const renderings = await Promise.all(roundedDynamicBlocks.map(async (block) => {
+        const blockState = serverSideRenderedBlock_1.default.create({
+            key: block.key,
+            region: block,
+        });
+        // regionCannotBeRendered can return jsx so look for plaintext
+        // version, or just get the default if none available
+        const cannotBeRenderedReason = self.regionCannotBeRenderedText(block) ||
+            self.regionCannotBeRendered(block);
+        if (cannotBeRenderedReason) {
+            return [
+                block,
+                {
+                    reactElement: (react_1.default.createElement(react_1.default.Fragment, null,
+                        react_1.default.createElement("rect", { x: 0, y: 0, width: width, height: 20, fill: "#aaa" }),
+                        react_1.default.createElement("text", { x: 0, y: 15 }, cannotBeRenderedReason))),
+                },
+            ];
+        }
+        const { rpcManager, renderArgs, renderProps, rendererType } = (0, serverSideRenderedBlock_1.renderBlockData)(blockState, self);
+        return [
+            block,
+            await rendererType.renderInClient(rpcManager, {
+                ...renderArgs,
+                ...renderProps,
+                viewParams: (0, util_1.getViewParams)(self, true),
+                exportSVG: opts,
+                theme: opts.theme || renderProps.theme,
+            }),
+        ];
+    }));
+    return (react_1.default.createElement(react_1.default.Fragment, null, renderings.map(([block, rendering], index) => {
+        const { offsetPx, widthPx } = block;
+        const offset = offsetPx - viewOffsetPx;
+        const clipid = (0, util_2.getId)(id, index);
+        return (react_1.default.createElement(react_1.default.Fragment, { key: `frag-${index}` },
+            react_1.default.createElement("defs", null,
+                react_1.default.createElement("clipPath", { id: clipid },
+                    react_1.default.createElement("rect", { x: 0, y: 0, width: widthPx, height: overrideHeight || height }))),
+            react_1.default.createElement("g", { transform: `translate(${offset} 0)` },
+                react_1.default.createElement("g", { clipPath: `url(#${clipid})` },
+                    react_1.default.createElement(util_1.ReactRendering, { rendering: rendering })))));
+    })));
+}
+exports.default = renderBaseLinearDisplaySvg;
+//# sourceMappingURL=renderSvg.js.map

package/dist/BaseLinearDisplay/models/renderSvg.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"renderSvg.js","sourceRoot":"","sources":["../../../src/BaseLinearDisplay/models/renderSvg.tsx"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,kDAAyB;AAEzB,6CAI2B;AAI3B,qFAAuE;AACvE,iCAA8B;AAIf,KAAK,UAAU,0BAA0B,CACtD,IAA4B,EAC5B,IAGC;IAED,MAAM,EAAE,MAAM,EAAE,EAAE,EAAE,GAAG,IAAI,CAAA;IAC3B,MAAM,EAAE,cAAc,EAAE,GAAG,IAAI,CAAA;IAC/B,MAAM,IAAI,GAAG,IAAA,wBAAiB,EAAC,IAAI,CAA0B,CAAA;IAC7D,MAAM,EAAE,QAAQ,EAAE,YAAY,EAAE,oBAAoB,EAAE,KAAK,EAAE,GAAG,IAAI,CAAA;IACpE,MAAM,UAAU,GAAG,MAAM,OAAO,CAAC,GAAG,CAClC,oBAAoB,CAAC,GAAG,CAAC,KAAK,EAAC,KAAK,EAAC,EAAE;QACrC,MAAM,UAAU,GAAG,iCAAU,CAAC,MAAM,CAAC;YACnC,GAAG,EAAE,KAAK,CAAC,GAAG;YACd,MAAM,EAAE,KAAK;SACd,CAAC,CAAA;QAEF,8DAA8D;QAC9D,qDAAqD;QACrD,MAAM,sBAAsB,GAC1B,IAAI,CAAC,0BAA0B,CAAC,KAAK,CAAC;YACtC,IAAI,CAAC,sBAAsB,CAAC,KAAK,CAAC,CAAA;QAEpC,IAAI,sBAAsB,EAAE;YAC1B,OAAO;gBACL,KAAK;gBACL;oBACE,YAAY,EAAE,CACZ;wBACE,wCAAM,CAAC,EAAE,CAAC,EAAE,CAAC,EAAE,CAAC,EAAE,KAAK,EAAE,KAAK,EAAE,MAAM,EAAE,EAAE,EAAE,IAAI,EAAC,MAAM,GAAG;wBAC1D,wCAAM,CAAC,EAAE,CAAC,EAAE,CAAC,EAAE,EAAE,IACd,sBAAsB,CAClB,CACN,CACJ;iBACF;aACO,CAAA;SACX;QAED,MAAM,EAAE,UAAU,EAAE,UAAU,EAAE,WAAW,EAAE,YAAY,EAAE,GACzD,IAAA,yCAAe,EAAC,UAAU,EAAE,IAAI,CAAC,CAAA;QAEnC,OAAO;YACL,KAAK;YACL,MAAM,YAAY,CAAC,cAAc,CAAC,UAAU,EAAE;gBAC5C,GAAG,UAAU;gBACb,GAAG,WAAW;gBACd,UAAU,EAAE,IAAA,oBAAa,EAAC,IAAI,EAAE,IAAI,CAAC;gBACrC,SAAS,EAAE,IAAI;gBACf,KAAK,EAAE,IAAI,CAAC,KAAK,IAAI,WAAW,CAAC,KAAK;aACvC,CAAC;SACM,CAAA;IACZ,CAAC,CAAC,CACH,CAAA;IAED,OAAO,CACL,8DACG,UAAU,CAAC,GAAG,CAAC,CAAC,CAAC,KAAK,EAAE,SAAS,CAAC,EAAE,KAAK,EAAE,EAAE;QAC5C,MAAM,EAAE,QAAQ,EAAE,OAAO,EAAE,GAAG,KAAK,CAAA;QACnC,MAAM,MAAM,GAAG,QAAQ,GAAG,YAAY,CAAA;QACtC,MAAM,MAAM,GAAG,IAAA,YAAK,EAAC,EAAE,EAAE,KAAK,CAAC,CAAA;QAE/B,OAAO,CACL,8BAAC,eAAK,CAAC,QAAQ,IAAC,GAAG,EAAE,QAAQ,KAAK,EAAE;YAClC;gBACE,4CAAU,EAAE,EAAE,MAAM;oBAClB,wCACE,CAAC,EAAE,CAAC,EACJ,CAAC,EAAE,CAAC,EACJ,KAAK,EAAE,OAAO,EACd,MAAM,EAAE,cAAc,IAAI,MAAM,GAChC,CACO,CACN;YACP,qCAAG,SAAS,EAAE,aAAa,MAAM,KAAK;gBACpC,qCAAG,QAAQ,EAAE,QAAQ,MAAM,GAAG;oBAC5B,8BAAC,qBAAc,IAAC,SAAS,EAAE,SAAS,GAAI,CACtC,CACF,CACW,CAClB,CAAA;IACH,CAAC,CAAC,CACD,CACJ,CAAA;AACH,CAAC;AArFD,6CAqFC"}

package/dist/BaseLinearDisplay/models/serverSideRenderedBlock.js

@@ -43,12 +43,16 @@ const blockState = mobx_state_tree_1.types
         },
         afterAttach() {
             const display = (0, util_1.getContainingDisplay)(self);
-            (0, util_1.makeAbortableReaction)(self, renderBlockData, renderBlockEffect, // reaction doesn't expect async here
-            {
-                name: `${display.id}/${(0, util_1.assembleLocString)(self.region)} rendering`,
-                delay: display.renderDelay,
-                fireImmediately: true,
-            }, this.setLoading, this.setRendered, this.setError);
+            setTimeout(() => {
+                if ((0, mobx_state_tree_1.isAlive)(self)) {
+                    (0, util_1.makeAbortableReaction)(self, renderBlockData, renderBlockEffect, // reaction doesn't expect async here
+                    {
+                        name: `${display.id}/${(0, util_1.assembleLocString)(self.region)} rendering`,
+                        delay: display.renderDelay,
+                        fireImmediately: true,
+                    }, this.setLoading, this.setRendered, this.setError);
+                }
+            }, display.renderDelay);
         },
         setStatus(message) {
             self.status = message;
@@ -130,22 +134,26 @@ const blockState = mobx_state_tree_1.types
             (0, mobx_state_tree_1.getParent)(self, 2).reload();
         },
         beforeDestroy() {
-            if (renderInProgress && !renderInProgress.signal.aborted) {
-                renderInProgress.abort();
-            }
-            const display = (0, util_1.getContainingDisplay)(self);
-            const { rpcManager } = (0, util_1.getSession)(self);
-            const { rendererType } = display;
-            const { renderArgs } = renderBlockData((0, mobx_state_tree_1.cast)(self));
-            // renderArgs can be undefined if an error occurred in this block
-            if (renderArgs) {
-                rendererType
-                    .freeResourcesInClient(rpcManager, JSON.parse(JSON.stringify(renderArgs)))
-                    .catch((e) => {
-                    // just console.error if it's something while it's being destroyed
-                    console.warn('Error while destroying block', e);
-                });
-            }
+            // eslint-disable-next-line @typescript-eslint/no-floating-promises
+            ;
+            (async () => {
+                try {
+                    if (renderInProgress && !renderInProgress.signal.aborted) {
+                        renderInProgress.abort();
+                    }
+                    const display = (0, util_1.getContainingDisplay)(self);
+                    const { rpcManager } = (0, util_1.getSession)(self);
+                    const { rendererType } = display;
+                    const { renderArgs } = renderBlockData((0, mobx_state_tree_1.cast)(self));
+                    // renderArgs can be undefined if an error occurred in this block
+                    if (renderArgs) {
+                        await rendererType.freeResourcesInClient(rpcManager, JSON.parse(JSON.stringify(renderArgs)));
+                    }
+                }
+                catch (e) {
+                    console.error('Error while destroying block', e);
+                }
+            })();
         },
     };
 });

package/dist/BaseLinearDisplay/models/serverSideRenderedBlock.js.map

@@ -1 +1 @@
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+{"version":3,"file":"serverSideRenderedBlock.js","sourceRoot":"","sources":["../../../src/BaseLinearDisplay/models/serverSideRenderedBlock.ts"],"names":[],"mappings":";;;;;;AAEA,qDAOwB;AACxB,+DAA4D;AAC5D,6CAQ2B;AAC3B,sDAAqD;AACrD,oDAGiC;AAEjC,sDAGkC;AAElC,SAAS;AACT,kHAAyF;AAEzF,oEAAoE;AACpE,MAAM,UAAU,GAAG,uBAAK;KACrB,KAAK,CAAC,YAAY,EAAE;IACnB,GAAG,EAAE,uBAAK,CAAC,MAAM;IACjB,MAAM,EAAE,YAAM;IACd,UAAU,EAAE,CAAC;IACb,0BAA0B,EAAE,KAAK;IACjC,2BAA2B,EAAE,KAAK;CACnC,CAAC;IACF,yFAAyF;KACxF,QAAQ,CAAC,GAAG,EAAE,CAAC,CAAC;IACf,gBAAgB,EAAE,SAAwC;IAC1D,MAAM,EAAE,KAAK;IACb,YAAY,EAAE,SAA2C;IACzD,QAAQ,EAAE,SAA6C;IACvD,MAAM,EAAE,SAAgB;IACxB,MAAM,EAAE,EAAE;IACV,KAAK,EAAE,SAAoB;IAC3B,OAAO,EAAE,SAA+B;IACxC,gBAAgB,EAAE,KAAK;IACvB,cAAc,EAAE,wCAA8B;IAC9C,WAAW,EAAE,SAAgB;CAC9B,CAAC,CAAC;KACF,OAAO,CAAC,IAAI,CAAC,EAAE;IACd,IAAI,gBAA6C,CAAA;IACjD,OAAO;QACL,QAAQ;YACN,IAAI,CAAC,UAAU,GAAG,IAAI,CAAC,UAAU,GAAG,CAAC,CAAA;QACvC,CAAC;QACD,WAAW;YACT,MAAM,OAAO,GAAG,IAAA,2BAAoB,EAAC,IAAI,CAAC,CAAA;YAC1C,UAAU,CAAC,GAAG,EAAE;gBACd,IAAI,IAAA,yBAAO,EAAC,IAAI,CAAC,EAAE;oBACjB,IAAA,4BAAqB,EACnB,IAAW,EACX,eAAe,EACf,iBAAiB,EAAE,qCAAqC;oBACxD;wBACE,IAAI,EAAE,GAAG,OAAO,CAAC,EAAE,IAAI,IAAA,wBAAiB,EACtC,IAAI,CAAC,MAAM,CACZ,YAAY;wBACb,KAAK,EAAE,OAAO,CAAC,WAAW;wBAC1B,eAAe,EAAE,IAAI;qBACtB,EACD,IAAI,CAAC,UAAU,EACf,IAAI,CAAC,WAAW,EAChB,IAAI,CAAC,QAAQ,CACd,CAAA;iBACF;YACH,CAAC,EAAE,OAAO,CAAC,WAAW,CAAC,CAAA;QACzB,CAAC;QACD,SAAS,CAAC,OAAe;YACvB,IAAI,CAAC,MAAM,GAAG,OAAO,CAAA;QACvB,CAAC;QACD,UAAU,CAAC,eAAgC;YACzC,IACE,gBAAgB,KAAK,SAAS;gBAC9B,CAAC,gBAAgB,CAAC,MAAM,CAAC,OAAO,EAChC;gBACA,gBAAgB,CAAC,KAAK,EAAE,CAAA;aACzB;YACD,IAAI,CAAC,MAAM,GAAG,KAAK,CAAA;YACnB,IAAI,CAAC,OAAO,GAAG,SAAS,CAAA;YACxB,IAAI,CAAC,YAAY,GAAG,SAAS,CAAA;YAC7B,IAAI,CAAC,QAAQ,GAAG,SAAS,CAAA;YACzB,IAAI,CAAC,MAAM,GAAG,SAAS,CAAA;YACvB,IAAI,CAAC,KAAK,GAAG,SAAS,CAAA;YACtB,IAAI,CAAC,gBAAgB,GAAG,KAAK,CAAA;YAC7B,IAAI,CAAC,WAAW,GAAG,SAAS,CAAA;YAC5B,gBAAgB,GAAG,eAAe,CAAA;QACpC,CAAC;QACD,UAAU,CAAC,WAAmB;YAC5B,IAAI,gBAAgB,IAAI,CAAC,gBAAgB,CAAC,MAAM,CAAC,OAAO,EAAE;gBACxD,gBAAgB,CAAC,KAAK,EAAE,CAAA;aACzB;YACD,IAAI,CAAC,MAAM,GAAG,KAAK,CAAA;YACnB,IAAI,CAAC,OAAO,GAAG,WAAW,CAAA;YAC1B,IAAI,CAAC,YAAY,GAAG,SAAS,CAAA;YAC7B,IAAI,CAAC,QAAQ,GAAG,SAAS,CAAA;YACzB,IAAI,CAAC,MAAM,GAAG,SAAS,CAAA;YACvB,IAAI,CAAC,KAAK,GAAG,SAAS,CAAA;YACtB,IAAI,CAAC,gBAAgB,GAAG,KAAK,CAAA;YAC7B,IAAI,CAAC,WAAW,GAAG,SAAS,CAAA;YAC5B,gBAAgB,GAAG,SAAS,CAAA;QAC9B,CAAC;QACD,WAAW,CACT,KAQa;YAEb,IAAI,CAAC,KAAK,EAAE;gBACV,OAAM;aACP;YACD,MAAM,EACJ,YAAY,EACZ,QAAQ,EACR,MAAM,EACN,gBAAgB,EAChB,WAAW,GACZ,GAAG,KAAK,CAAA;YACT,IAAI,CAAC,MAAM,GAAG,IAAI,CAAA;YAClB,IAAI,CAAC,OAAO,GAAG,SAAS,CAAA;YACxB,IAAI,CAAC,YAAY,GAAG,YAAY,CAAA;YAChC,IAAI,CAAC,QAAQ,GAAG,QAAQ,CAAA;YACxB,IAAI,CAAC,MAAM,GAAG,MAAM,CAAA;YACpB,IAAI,CAAC,KAAK,GAAG,SAAS,CAAA;YACtB,IAAI,CAAC,gBAAgB,GAAG,gBAAgB,CAAA;YACxC,IAAI,CAAC,WAAW,GAAG,WAAW,CAAA;YAC9B,gBAAgB,GAAG,SAAS,CAAA;QAC9B,CAAC;QACD,QAAQ,CAAC,KAAc;YACrB,OAAO,CAAC,KAAK,CAAC,KAAK,CAAC,CAAA;YACpB,IAAI,gBAAgB,IAAI,CAAC,gBAAgB,CAAC,MAAM,CAAC,OAAO,EAAE;gBACxD,gBAAgB,CAAC,KAAK,EAAE,CAAA;aACzB;YACD,uCAAuC;YACvC,IAAI,CAAC,MAAM,GAAG,KAAK,CAAA;YACnB,IAAI,CAAC,OAAO,GAAG,SAAS,CAAA;YACxB,IAAI,CAAC,YAAY,GAAG,SAAS,CAAA;YAC7B,IAAI,CAAC,QAAQ,GAAG,SAAS,CAAA;YACzB,IAAI,CAAC,MAAM,GAAG,SAAS,CAAA;YACvB,IAAI,CAAC,gBAAgB,GAAG,KAAK,CAAA;YAC7B,IAAI,CAAC,KAAK,GAAG,KAAK,CAAA;YAClB,IAAI,CAAC,WAAW,GAAG,SAAS,CAAA;YAC5B,gBAAgB,GAAG,SAAS,CAAA;YAC5B,IAAI,IAAA,wBAAgB,EAAC,KAAc,CAAC,EAAE;gBACpC,IAAI,CAAC,MAAM,EAAE,CAAA;aACd;QACH,CAAC;QACD,MAAM;YACJ,IAAI,CAAC,gBAAgB,GAAG,SAAS,CAAA;YACjC,IAAI,CAAC,MAAM,GAAG,KAAK,CAAA;YACnB,IAAI,CAAC,YAAY,GAAG,SAAS,CAAA;YAC7B,IAAI,CAAC,QAAQ,GAAG,SAAS,CAAA;YACzB,IAAI,CAAC,MAAM,GAAG,SAAS,CAAA;YACvB,IAAI,CAAC,KAAK,GAAG,SAAS,CAAA;YACtB,IAAI,CAAC,OAAO,GAAG,SAAS,CAAA;YACxB,IAAI,CAAC,gBAAgB,GAAG,KAAK,CAAA;YAC7B,IAAI,CAAC,cAAc,GAAG,wCAA8B,CAAA;YACpD,IAAI,CAAC,WAAW,GAAG,SAAS,CAAA;YAC5B,IAAA,2BAAS,EAAM,IAAI,EAAE,CAAC,CAAC,CAAC,MAAM,EAAE,CAAA;QAClC,CAAC;QACD,aAAa;YACX,mEAAmE;YACnE,CAAC;YAAA,CAAC,KAAK,IAAI,EAAE;gBACX,IAAI;oBACF,IAAI,gBAAgB,IAAI,CAAC,gBAAgB,CAAC,MAAM,CAAC,OAAO,EAAE;wBACxD,gBAAgB,CAAC,KAAK,EAAE,CAAA;qBACzB;oBACD,MAAM,OAAO,GAAG,IAAA,2BAAoB,EAAC,IAAI,CAAC,CAAA;oBAC1C,MAAM,EAAE,UAAU,EAAE,GAAG,IAAA,iBAAU,EAAC,IAAI,CAAC,CAAA;oBACvC,MAAM,EAAE,YAAY,EAAE,GAAG,OAAO,CAAA;oBAChC,MAAM,EAAE,UAAU,EAAE,GAAG,eAAe,CAAC,IAAA,sBAAI,EAAC,IAAI,CAAC,CAAC,CAAA;oBAClD,iEAAiE;oBACjE,IAAI,UAAU,EAAE;wBACd,MAAM,YAAY,CAAC,qBAAqB,CACtC,UAAU,EACV,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,SAAS,CAAC,UAAU,CAAC,CAAC,CACvC,CAAA;qBACF;iBACF;gBAAC,OAAO,CAAC,EAAE;oBACV,OAAO,CAAC,KAAK,CAAC,8BAA8B,EAAE,CAAC,CAAC,CAAA;iBACjD;YACH,CAAC,CAAC,EAAE,CAAA;QACN,CAAC;KACF,CAAA;AACH,CAAC,CAAC,CAAA;AAEJ,kBAAe,UAAU,CAAA;AAIzB,2EAA2E;AAC3E,mDAAmD;AACnD,SAAgB,eAAe,CAC7B,IAAgB,EAChB,UAAiC;IAEjC,IAAI;QACF,MAAM,OAAO,GAAG,UAAU,IAAK,IAAA,2BAAoB,EAAC,IAAI,CAAS,CAAA;QACjE,MAAM,EAAE,eAAe,EAAE,UAAU,EAAE,GAAG,IAAA,iBAAU,EAAC,OAAO,CAAC,CAAA;QAC3D,MAAM,EAAE,aAAa,EAAE,YAAY,EAAE,KAAK,EAAE,WAAW,EAAE,GAAG,OAAO,CAAA;QACnE,MAAM,aAAa,GAAG,IAAA,8BAAqB,EAAC,WAAW,CAAC,CAAA;QACxD,MAAM,SAAS,GAAG,IAAI,CAAC,MAAM,CAAC,YAAY,CAAA;QAC1C,IACE,CAAC,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package/dist/BaseLinearDisplay/models/util.d.ts

@@ -1,4 +1,5 @@
-import { Stats } from '@jbrowse/core/data_adapters/BaseAdapter';
+import { AnyConfigurationModel } from '@jbrowse/core/configuration';
+import { FeatureDensityStats } from '@jbrowse/core/data_adapters/BaseAdapter';
 import { IAnyStateTreeNode } from 'mobx-state-tree';
 export interface RenderProps {
     rendererType: any;
@@ -19,4 +20,7 @@ export interface ErrorProps {
 }
 export declare function getDisplayStr(totalBytes: number): string;
 export declare function getId(id: string, index: number): string;
-export declare function estimateRegionsStatsPre(self: IAnyStateTreeNode): Promise<Stats>;
+export declare function getFeatureDensityStatsPre(self: IAnyStateTreeNode & {
+    adapterConfig?: AnyConfigurationModel;
+    setMessage: (arg: string) => void;
+}): Promise<FeatureDensityStats>;