@genome-spy/core 0.76.0 → 0.77.0

package/dist/src/data/sources/lazy/bigWigSource.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"bigWigSource.d.ts","sourceRoot":"","sources":["../../../../../src/data/sources/lazy/bigWigSource.js"],"names":[],"mappings":"AAQA;;GAEG;AACH;IAOI;;;OAGG;IACH,oBAHW,OAAO,uBAAuB,EAAE,UAAU,QAC1C,OAAO,uBAAuB,EAAE,OAAO,EAoCjD;IArBG,mDAYC;IA+DL;;;;OAIG;IACH,wBAFW,MAAM,EAAE,iBAqBlB;IAED;;;OAGG;IAEH,uBAJW,MAAM,EAAE,kBACR,MAAM,iBA2BhB;;CACJ;qCAhKoC,+BAA+B"}
+{"version":3,"file":"bigWigSource.d.ts","sourceRoot":"","sources":["../../../../../src/data/sources/lazy/bigWigSource.js"],"names":[],"mappings":"AAQA;;GAEG;AACH;IAOI;;;OAGG;IACH,oBAHW,OAAO,uBAAuB,EAAE,UAAU,QAC1C,OAAO,uBAAuB,EAAE,OAAO,EAoCjD;IArBG,mDAYC;IA+DL;;;;OAIG;IACH,wBAFW,MAAM,EAAE,iBAqBlB;IAED;;;OAGG;IAEH,uBAJW,MAAM,EAAE,kBACR,MAAM,iBAkChB;;CACJ;qCAvKoC,+BAA+B"}

package/dist/src/data/sources/lazy/bigWigSource.js

@@ -142,23 +142,30 @@ export default class BigWigSource extends SingleAxisWindowedSource {
     async loadInterval(interval, reductionLevel) {
         const scale =
             1 / 2 / reductionLevel / withoutExprRef(this.params.pixelsPerBin);
-        const featureChunks = await this.discretizeAndLoad(
-            interval,
-            (d, signal) =>
+        const featureChunks = await this.discretizeAndLoad(interval, {
+            load: (d, signal) =>
                 this.#bbi
                     .getFeatures(d.chrom, d.startPos, d.endPos, {
                         scale,
                         signal,
                     })
-                    .then((features) =>
-                        features.map((f) => ({
-                            chrom: d.chrom,
-                            start: f.start,
-                            end: f.end,
-                            score: f.score,
-                        }))
+                    .then((features) => mapFeatures(d.chrom, features)),
+            loadBatch: (intervals, signal) =>
+                this.#bbi
+                    .getFeaturesMulti(
+                        intervals.map((d) => ({
+                            refName: d.chrom,
+                            start: d.startPos,
+                            end: d.endPos,
+                        })),
+                        { scale, signal }
                     )
-        );
+                    .then((featureChunks) =>
+                        featureChunks.map((features, i) =>
+                            mapFeatures(intervals[i].chrom, features)
+                        )
+                    ),
+        });
 
         if (featureChunks) {
             this.publishData(featureChunks);
@@ -176,6 +183,19 @@ function isBigWigSource(params) {
 
 registerBuiltInLazyDataSource(isBigWigSource, BigWigSource);
 
+/**
+ * @param {string} chrom
+ * @param {import("@gmod/bbi").Feature[]} features
+ */
+function mapFeatures(chrom, features) {
+    return features.map((f) => ({
+        chrom,
+        start: f.start,
+        end: f.end,
+        score: f.score,
+    }));
+}
+
 /**
  * @param {number[]} domain
  * @param {number} widthInPixels view width in pixels

package/dist/src/data/sources/lazy/singleAxisWindowedSource.d.ts

@@ -1,3 +1,13 @@
+/**
+ * @template T
+ * @typedef {(discreteInterval: import("@genome-spy/core/genome/genome.js").DiscreteChromosomeInterval, signal: AbortSignal) => Promise<T>} DiscreteIntervalLoader
+ */
+/**
+ * @template T
+ * @typedef {object} DiscreteIntervalLoaders
+ * @prop {DiscreteIntervalLoader<T>} load
+ * @prop {(discreteIntervals: import("@genome-spy/core/genome/genome.js").DiscreteChromosomeInterval[], signal: AbortSignal) => Promise<T[]>} [loadBatch]
+ */
 /**
  * Divides the domain into windows and loads the data for one or two consecutive windows
  * that cover the visible interval.
@@ -36,15 +46,16 @@ export default class SingleAxisWindowedSource extends SingleAxisLazySource {
     protected reloadLastDomain(): void;
     /**
      * Splits the interval into discrete chromosomal intervals – one for each chromosome –
-     * and loads the data for each of them. Handles abort signals and errors.
+     * and loads the data using a batched loader when available. Handles abort signals
+     * and errors.
      *
      * @param {number[]} interval
-     * @param {(discreteInteval: import("@genome-spy/core/genome/genome.js").DiscreteChromosomeInterval, signal: AbortSignal) => Promise<T>} loader
+     * @param {DiscreteIntervalLoader<T> | DiscreteIntervalLoaders<T>} loader
      * @return {Promise<T[]>}
      * @template T
      * @protected
      */
-    protected discretizeAndLoad<T>(interval: number[], loader: (discreteInteval: import("@genome-spy/core/genome/genome.js").DiscreteChromosomeInterval, signal: AbortSignal) => Promise<T>): Promise<T[]>;
+    protected discretizeAndLoad<T>(interval: number[], loader: DiscreteIntervalLoader<T> | DiscreteIntervalLoaders<T>): Promise<T[]>;
     /**
      *
      * @param {number[]} interval Domain
@@ -55,5 +66,10 @@ export default class SingleAxisWindowedSource extends SingleAxisLazySource {
     protected callIfWindowsChanged(interval: number[], windowSize: number, callback: (arg0: number[]) => void): void;
     #private;
 }
+export type DiscreteIntervalLoader<T> = (discreteInterval: import("@genome-spy/core/genome/genome.js").DiscreteChromosomeInterval, signal: AbortSignal) => Promise<T>;
+export type DiscreteIntervalLoaders<T> = {
+    load: DiscreteIntervalLoader<T>;
+    loadBatch?: (discreteIntervals: import("@genome-spy/core/genome/genome.js").DiscreteChromosomeInterval[], signal: AbortSignal) => Promise<T[]>;
+};
 import SingleAxisLazySource from "./singleAxisLazySource.js";
 //# sourceMappingURL=singleAxisWindowedSource.d.ts.map

package/dist/src/data/sources/lazy/singleAxisWindowedSource.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"singleAxisWindowedSource.d.ts","sourceRoot":"","sources":["../../../../../src/data/sources/lazy/singleAxisWindowedSource.js"],"names":[],"mappings":"AAIA;;;;;GAKG;AACH;IAWI;;;OAGG;IACH,kBAHU;QAAC,UAAU,CAAC,EAAE,MAAM,GAAG,OAAO,4BAA4B,EAAE,OAAO,CAAA;KAAC,CAGvE;IAEP;;;OAGG;IACH,0CAHW,OAAO,uBAAuB,EAAE,aAAa,QAqBvD;IAED;;;;OAIG;IACH,wBAFW,MAAM,EAAE,QAqBlB;IAeD;;;;;OAKG;IACH,iCAHW,MAAM,EAAE,iBAKlB;IArBD;;OAEG;IACH,mCAQC;IAyBD;;;;;;;;;OASG;IACH,4BAHa,CAAC,YAHH,MAAM,EAAE,UACR,CAAC,eAAe,EAAE,OAAO,mCAAmC,EAAE,0BAA0B,EAAE,MAAM,EAAE,WAAW,KAAK,OAAO,CAAC,CAAC,CAAC,GAC3H,OAAO,CAAC,CAAC,EAAE,CAAC,CAyCvB;IAED;;;;;;OAMG;IACH,yCALW,MAAM,EAAE,cACR,MAAM,YACN,CAAS,IAAQ,EAAR,MAAM,EAAE,KAAE,IAAI,QAyBjC;;CACJ;iCA9LgC,2BAA2B"}
+{"version":3,"file":"singleAxisWindowedSource.d.ts","sourceRoot":"","sources":["../../../../../src/data/sources/lazy/singleAxisWindowedSource.js"],"names":[],"mappings":"AAIA;;;GAGG;AAEH;;;;;GAKG;AAEH;;;;;GAKG;AACH;IAWI;;;OAGG;IACH,kBAHU;QAAC,UAAU,CAAC,EAAE,MAAM,GAAG,OAAO,4BAA4B,EAAE,OAAO,CAAA;KAAC,CAGvE;IAEP;;;OAGG;IACH,0CAHW,OAAO,uBAAuB,EAAE,aAAa,QAqBvD;IAED;;;;OAIG;IACH,wBAFW,MAAM,EAAE,QAqBlB;IAeD;;;;;OAKG;IACH,iCAHW,MAAM,EAAE,iBAKlB;IArBD;;OAEG;IACH,mCAQC;IAyBD;;;;;;;;;;OAUG;IACH,4BAHa,CAAC,YAHH,MAAM,EAAE,UACR,sBAAsB,CAAC,CAAC,CAAC,GAAG,uBAAuB,CAAC,CAAC,CAAC,GACrD,OAAO,CAAC,CAAC,EAAE,CAAC,CAiDvB;IAED;;;;;;OAMG;IACH,yCALW,MAAM,EAAE,cACR,MAAM,YACN,CAAS,IAAQ,EAAR,MAAM,EAAE,KAAE,IAAI,QAyBjC;;CACJ;mCAhNY,CAAC,IACD,CAAC,gBAAgB,EAAE,OAAO,mCAAmC,EAAE,0BAA0B,EAAE,MAAM,EAAE,WAAW,KAAK,OAAO,CAAC,CAAC,CAAC;oCAI7H,CAAC;UAEJ,sBAAsB,CAAC,CAAC,CAAC;gBACzB,CAAC,iBAAiB,EAAE,OAAO,mCAAmC,EAAE,0BAA0B,EAAE,EAAE,MAAM,EAAE,WAAW,KAAK,OAAO,CAAC,CAAC,EAAE,CAAC;;iCAX3G,2BAA2B"}

package/dist/src/data/sources/lazy/singleAxisWindowedSource.js

@@ -2,6 +2,18 @@ import { withoutExprRef } from "../../../paramRuntime/paramUtils.js";
 import { debounce } from "../../../utils/debounce.js";
 import SingleAxisLazySource from "./singleAxisLazySource.js";
 
+/**
+ * @template T
+ * @typedef {(discreteInterval: import("@genome-spy/core/genome/genome.js").DiscreteChromosomeInterval, signal: AbortSignal) => Promise<T>} DiscreteIntervalLoader
+ */
+
+/**
+ * @template T
+ * @typedef {object} DiscreteIntervalLoaders
+ * @prop {DiscreteIntervalLoader<T>} load
+ * @prop {(discreteIntervals: import("@genome-spy/core/genome/genome.js").DiscreteChromosomeInterval[], signal: AbortSignal) => Promise<T[]>} [loadBatch]
+ */
+
 /**
  * Divides the domain into windows and loads the data for one or two consecutive windows
  * that cover the visible interval.
@@ -113,10 +125,11 @@ export default class SingleAxisWindowedSource extends SingleAxisLazySource {
 
     /**
      * Splits the interval into discrete chromosomal intervals – one for each chromosome –
-     * and loads the data for each of them. Handles abort signals and errors.
+     * and loads the data using a batched loader when available. Handles abort signals
+     * and errors.
      *
      * @param {number[]} interval
-     * @param {(discreteInteval: import("@genome-spy/core/genome/genome.js").DiscreteChromosomeInterval, signal: AbortSignal) => Promise<T>} loader
+     * @param {DiscreteIntervalLoader<T> | DiscreteIntervalLoaders<T>} loader
      * @return {Promise<T[]>}
      * @template T
      * @protected
@@ -130,21 +143,29 @@ export default class SingleAxisWindowedSource extends SingleAxisLazySource {
         this.#abortController = new AbortController();
         const signal = this.#abortController.signal;
 
-        // GMOD libraries expect a single chromosome/sequence for each request.
-        // Thus, we split the interval into discrete intervals representing
-        // individual chromosomes and load the data for each of them separately
-        // but in parallel.
+        // Lazy sources load data using chromosome coordinates. The continuous
+        // scale domain must be split before it can be passed to the source.
         const discreteChromosomeIntervals =
             this.genome.continuousToDiscreteChromosomeIntervals(interval);
 
+        const loaders = typeof loader == "function" ? { load: loader } : loader;
+
         try {
-            const resultByChrom = await Promise.all(
-                discreteChromosomeIntervals.map(
-                    async (
-                        /** @type {import("@genome-spy/core/genome/genome.js").DiscreteChromosomeInterval} */ d
-                    ) => loader(d, signal)
-                )
-            );
+            const resultByChrom = loaders.loadBatch
+                ? await loaders.loadBatch(discreteChromosomeIntervals, signal)
+                : await Promise.all(
+                      discreteChromosomeIntervals.map(
+                          async (
+                              /** @type {import("@genome-spy/core/genome/genome.js").DiscreteChromosomeInterval} */ d
+                          ) => loaders.load(d, signal)
+                      )
+                  );
+
+            if (resultByChrom.length !== discreteChromosomeIntervals.length) {
+                throw new Error(
+                    "Batched lazy loader must return one chunk per interval."
+                );
+            }
 
             if (!signal.aborted) {
                 this.setLoadingStatus("complete");

package/dist/src/data/transforms/filterScoredLabels.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"filterScoredLabels.d.ts","sourceRoot":"","sources":["../../../../src/data/transforms/filterScoredLabels.js"],"names":[],"mappings":"AAOA;IAcI;;;;OAIG;IACH,oBAHW,OAAO,yBAAyB,EAAE,wBAAwB,QAC1D,OAAO,oBAAoB,EAAE,OAAO,EAkD9C;IA9DD;;;;OAIG;IACH,kDAEC;IAUG,mEAAoB;IAEpB,oBAAoB;IACpB,OADW,GAAG,EAAE,CACD;IAEf,mBAAoC;IAMpC,sDAA8C;IAC9C,oDAAgE;IAChE,wDAAuD;IACvD,sDAAmD;IACnD,mDAA6C;IAC7C,mDAA6C;IAC7C,gCAAgC;IAChC,cADW,CAAS,IAAG,EAAH,GAAG,KAAE,GAAG,CAGd;IACd,gBAAuC;IAEvC,uCAAuC;IACvC,iBADW,GAAG,CAAC,GAAG,EAAE,cAAc,CAAC,CACH;IAEhC,8DAAuD;IAIvD,qBAAuE;IA8B3E,4BAsEC;IAKG,sBAAuB;CAU9B;sBAzKqB,gBAAgB;2BAFX,+BAA+B"}
+{"version":3,"file":"filterScoredLabels.d.ts","sourceRoot":"","sources":["../../../../src/data/transforms/filterScoredLabels.js"],"names":[],"mappings":"AAOA;IAcI;;;;OAIG;IACH,oBAHW,OAAO,yBAAyB,EAAE,wBAAwB,QAC1D,OAAO,oBAAoB,EAAE,OAAO,EAmD9C;IA/DD;;;;OAIG;IACH,kDAEC;IAUG,mEAAoB;IAEpB,oBAAoB;IACpB,OADW,GAAG,EAAE,CACD;IAEf,mBAAoC;IAMpC,sDAA8C;IAC9C,oDAAgE;IAChE,wDAAuD;IACvD,sDAAmD;IACnD,mDAA6C;IAC7C,mDAA6C;IAC7C,gCAAgC;IAChC,cADW,CAAS,IAAG,EAAH,GAAG,KAAE,GAAG,CAGd;IACd,gBAAuC;IAEvC,uCAAuC;IACvC,iBADW,GAAG,CAAC,GAAG,EAAE,cAAc,CAAC,CACH;IAEhC,8DAAuD;IAIvD,qBAAuE;IA+B3E,4BAsEC;IAKG,sBAAuB;CAU9B;sBA1KqB,gBAAgB;2BAFX,+BAA+B"}

package/dist/src/data/transforms/filterScoredLabels.js

@@ -59,8 +59,9 @@ export default class FilterScoredLabelsTransform extends Transform {
         const callback = () => this._filterAndPropagate();
         this.schedule = () => view.context.animator.requestTransition(callback);
 
-        // Propagate when the domain changes
-        const domainListener = () => this.schedule();
+        // Propagate immediately when the domain changes so inertial zoom frames
+        // render with labels computed for the current scale domain.
+        const domainListener = () => this._filterAndPropagate();
         this.resolution.addEventListener("domain", domainListener);
         this.registerDisposer(() =>
             this.resolution.removeEventListener("domain", domainListener)

package/dist/src/embedFactory.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"embedFactory.d.ts","sourceRoot":"","sources":["../../src/embedFactory.js"],"names":[],"mappings":"AAKA;;;GAGG;AACH,uCAHW,KAAK,SAAS,EAAE,WAAW,EAAE,IAAI,EAAE,OAAO,gBAAgB,EAAE,QAAQ,EAAE,OAAO,CAAC,EAAE,OAAO,qBAAqB,EAAE,YAAY,KAAK,OAAO,gBAAgB,EAAE,OAAO,GAC7J,CAAC,EAAE,EAAE,WAAW,GAAG,MAAM,EAAE,IAAI,EAAE,OAAO,gBAAgB,EAAE,QAAQ,GAAG,MAAM,EAAE,OAAO,CAAC,EAAE,OAAO,qBAAqB,EAAE,YAAY,KAAK,OAAO,CAAC,OAAO,qBAAqB,EAAE,WAAW,CAAC,CAmFpM;AAaD;;;;;GAKG;AACH,8BAFW,MAAM,gBAmBhB"}
+{"version":3,"file":"embedFactory.d.ts","sourceRoot":"","sources":["../../src/embedFactory.js"],"names":[],"mappings":"AAKA;;;GAGG;AACH,uCAHW,KAAK,SAAS,EAAE,WAAW,EAAE,IAAI,EAAE,OAAO,gBAAgB,EAAE,QAAQ,EAAE,OAAO,CAAC,EAAE,OAAO,qBAAqB,EAAE,YAAY,KAAK,OAAO,gBAAgB,EAAE,OAAO,GAC7J,CAAC,EAAE,EAAE,WAAW,GAAG,MAAM,EAAE,IAAI,EAAE,OAAO,gBAAgB,EAAE,QAAQ,GAAG,MAAM,EAAE,OAAO,CAAC,EAAE,OAAO,qBAAqB,EAAE,YAAY,KAAK,OAAO,CAAC,OAAO,qBAAqB,EAAE,WAAW,CAAC,CAqFpM;AAaD;;;;;GAKG;AACH,8BAFW,MAAM,gBAmBhB"}

package/dist/src/embedFactory.js

@@ -79,6 +79,8 @@ export function createEmbed(GenomeSpy) {
                 return genomeSpy.getNamedScaleResolutions().get(name);
             },
 
+            getParam: genomeSpy.getParam.bind(genomeSpy),
+
             awaitVisibleLazyData:
                 genomeSpy.awaitVisibleLazyData.bind(genomeSpy),
             getRenderedBounds: genomeSpy.getRenderedBounds.bind(genomeSpy),

package/dist/src/genomeSpy/viewContextFactory.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"viewContextFactory.d.ts","sourceRoot":"","sources":["../../../src/genomeSpy/viewContextFactory.js"],"names":[],"mappings":"AAAA;;GAEG;AAEH;;;;;;;;;;GAUG;AACH,2CANW,OAAO,CAAC,WAAW,CAAC,GAAG;IAC7B,6BAA6B,CAAC,EAAE,CAAC,OAAO,EAAE,WAAW,EAAE,IAAI,EAAE,OAAO,iBAAiB,EAAE,QAAQ,GAAG,OAAO,iBAAiB,EAAE,UAAU,EAAE,YAAY,CAAC,EAAE,OAAO,0BAA0B,EAAE,OAAO,EAAE,UAAU,CAAC,EAAE,OAAO,iBAAiB,EAAE,OAAO,EAAE,WAAW,CAAC,EAAE,MAAM,EAAE,SAAS,CAAC,EAAE,CAAC,IAAI,EAAE,OAAO,iBAAiB,EAAE,QAAQ,KAAK,IAAI,EAAE,OAAO,CAAC,EAAE,OAAO,yBAAyB,EAAE,iBAAiB,KAAK,OAAO,CAAC,OAAO,iBAAiB,EAAE,OAAO,CAAC,CAAA;IACrb,oBAAoB,CAAC,EAAE,OAAO,CAAA;CAC/B,GACS,WAAW,CAwEvB;0BApFY,OAAO,yBAAyB,EAAE,OAAO"}
+{"version":3,"file":"viewContextFactory.d.ts","sourceRoot":"","sources":["../../../src/genomeSpy/viewContextFactory.js"],"names":[],"mappings":"AAAA;;GAEG;AAEH;;;;;;;;;;GAUG;AACH,2CANW,OAAO,CAAC,WAAW,CAAC,GAAG;IAC7B,6BAA6B,CAAC,EAAE,CAAC,OAAO,EAAE,WAAW,EAAE,IAAI,EAAE,OAAO,iBAAiB,EAAE,QAAQ,GAAG,OAAO,iBAAiB,EAAE,UAAU,EAAE,YAAY,CAAC,EAAE,OAAO,0BAA0B,EAAE,OAAO,EAAE,UAAU,CAAC,EAAE,OAAO,iBAAiB,EAAE,OAAO,EAAE,WAAW,CAAC,EAAE,MAAM,EAAE,SAAS,CAAC,EAAE,CAAC,IAAI,EAAE,OAAO,iBAAiB,EAAE,QAAQ,KAAK,IAAI,EAAE,OAAO,CAAC,EAAE,OAAO,yBAAyB,EAAE,iBAAiB,KAAK,OAAO,CAAC,OAAO,iBAAiB,EAAE,OAAO,CAAC,CAAA;IACrb,oBAAoB,CAAC,EAAE,OAAO,CAAA;CAC/B,GACS,WAAW,CAyEvB;0BArFY,OAAO,yBAAyB,EAAE,OAAO"}

package/dist/src/genomeSpy/viewContextFactory.js

@@ -60,6 +60,7 @@ export function createViewContext(options) {
     /** @type {(keyof ViewContext)[]} */
     const methodNames = [
         "requestLayoutReflow",
+        "renderImmediately",
         "updateTooltip",
         "getNamedDataFromProvider",
         "getCurrentHover",

package/dist/src/genomeSpyBase.d.ts

@@ -53,6 +53,12 @@ export default class GenomeSpy {
      * @param {any[]} data
      */
     updateNamedData(name: string, data: any[]): void;
+    /**
+     * Returns a handle for a named parameter.
+     *
+     * @param {string} name
+     */
+    getParam(name: string): import("./types/embedApi.js").ParamApi<import("./types/embedApi.js").ParamValue>;
     /**
      * @param {string} type
      * @param {(event: any) => void} listener

package/dist/src/genomeSpyBase.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"genomeSpyBase.d.ts","sourceRoot":"","sources":["../../src/genomeSpyBase.js"],"names":[],"mappings":"AA8CA;;;GAGG;AAEH;IAoBI;;;;;OAKG;IAEH;;;;;OAKG;IACH,uBAJW,WAAW,qDAEX,OAAO,qBAAqB,EAAE,YAAY,EA0CpD;IAvCG,uBAA0B;IAC1B,oDAAsB;IAItB,sCAAsC;IACtC,wCAAgB;IAEhB,yBAAoC;IAEpC,4CAA4C;IAC5C,oBADW,CAAC,CAAS,IAAM,EAAN,MAAM,KAAE,MAAM,EAAE,CAAC,EAAE,CACZ;IAE5B,mBAAoD;IAEpD,0BAA0B;IAC1B,aADW,WAAW,CACM;IAE5B;;;;;OAKG;IACH,yBAFU,CAAC,IAAI,qEAAM,KAAK,OAAO,CAE8B;IAE/D,oFAAoF;IACpF,iBADW,MAAM,CAAC,MAAM,EAAE,OAAO,6BAA6B,EAAE,cAAc,CAAC,CAK9E;IAED,mBAAmB;IACnB,8EAAyB;IAIzB,YAAkC;IAatC;;;OAGG;IACH,oCAFW,CAAC,IAAI,EAAE,MAAM,KAAK,GAAG,EAAE,QAIjC;IAED;;OAEG;IACH,+BAFW,MAAM,YAShB;IAED;;;;OAIG;IACH,sBAHW,MAAM,QACN,GAAG,EAAE,QAYf;IAED;;;OAGG;IACH,uBAHW,MAAM,YACN,CAAC,KAAK,EAAE,GAAG,KAAK,IAAI,QAI9B;IAED;;;OAGG;IACH,0BAHW,MAAM,YACN,CAAC,KAAK,EAAE,GAAG,KAAK,IAAI,QAI9B;IAED;;;;;OAKG;IACH,gBAHW,kBAAkB,YAClB,GAAG,QAMb;IAmEG,iDAAsB;IAQ1B;;OAEG;IACH,gBAqBC;IAyND;;;OAGG;IACH,UAFa,OAAO,CAAC,OAAO,CAAC,CAyC5B;IAED,2CAiBC;IAED;;;;;OAKG;IACH,8BAFW,WAAW,iBAerB;IAED;;;;;;;OAOG;IACH,cAFa,CAAC,SAFH,CAAC,cACD,CAAS,IAAC,EAAD,CAAC,KAAE,OAAO,CAAC,MAAM,GAAG,WAAW,GAAG,OAAO,KAAK,EAAE,cAAc,CAAC,QAKlF;IAED;;;;;;;;OAQG;IACH,4BANW,MAAM,kBACN,MAAM,qBACN,MAAM,eACN,MAAM,UAuBhB;IAED;;;MAEC;IAED;eACwB,MAAM,GAAG,SAAS;gBAAU,MAAM,GAAG,SAAS;MAcrE;IAED,sBAGC;IAED,kBAEC;IAED,iCAEC;IAED,oEAYC;IAED,uFAWC;;CACJ;;;;iCA/oBY,eAAe,GAAG,QAAQ,GAAG,gBAAgB,GAAG,kBAAkB;4BAtBnC,uBAAuB;qBAP9C,qBAAqB;wBAElB,yBAAyB;qBAL5B,oBAAoB"}
+{"version":3,"file":"genomeSpyBase.d.ts","sourceRoot":"","sources":["../../src/genomeSpyBase.js"],"names":[],"mappings":"AA+CA;;;GAGG;AAEH;IAoBI;;;;;OAKG;IAEH;;;;;OAKG;IACH,uBAJW,WAAW,qDAEX,OAAO,qBAAqB,EAAE,YAAY,EA0CpD;IAvCG,uBAA0B;IAC1B,oDAAsB;IAItB,sCAAsC;IACtC,wCAAgB;IAEhB,yBAAoC;IAEpC,4CAA4C;IAC5C,oBADW,CAAC,CAAS,IAAM,EAAN,MAAM,KAAE,MAAM,EAAE,CAAC,EAAE,CACZ;IAE5B,mBAAoD;IAEpD,0BAA0B;IAC1B,aADW,WAAW,CACM;IAE5B;;;;;OAKG;IACH,yBAFU,CAAC,IAAI,qEAAM,KAAK,OAAO,CAE8B;IAE/D,oFAAoF;IACpF,iBADW,MAAM,CAAC,MAAM,EAAE,OAAO,6BAA6B,EAAE,cAAc,CAAC,CAK9E;IAED,mBAAmB;IACnB,8EAAyB;IAIzB,YAAkC;IAatC;;;OAGG;IACH,oCAFW,CAAC,IAAI,EAAE,MAAM,KAAK,GAAG,EAAE,QAIjC;IAED;;OAEG;IACH,+BAFW,MAAM,YAShB;IAED;;;;OAIG;IACH,sBAHW,MAAM,QACN,GAAG,EAAE,QAYf;IAED;;;;OAIG;IACH,eAFW,MAAM,oFAIhB;IAED;;;OAGG;IACH,uBAHW,MAAM,YACN,CAAC,KAAK,EAAE,GAAG,KAAK,IAAI,QAI9B;IAED;;;OAGG;IACH,0BAHW,MAAM,YACN,CAAC,KAAK,EAAE,GAAG,KAAK,IAAI,QAI9B;IAED;;;;;OAKG;IACH,gBAHW,kBAAkB,YAClB,GAAG,QAMb;IAmEG,iDAAsB;IAQ1B;;OAEG;IACH,gBAqBC;IA0ND;;;OAGG;IACH,UAFa,OAAO,CAAC,OAAO,CAAC,CAyC5B;IAED,2CAiBC;IAED;;;;;OAKG;IACH,8BAFW,WAAW,iBAerB;IAED;;;;;;;OAOG;IACH,cAFa,CAAC,SAFH,CAAC,cACD,CAAS,IAAC,EAAD,CAAC,KAAE,OAAO,CAAC,MAAM,GAAG,WAAW,GAAG,OAAO,KAAK,EAAE,cAAc,CAAC,QAKlF;IAED;;;;;;;;OAQG;IACH,4BANW,MAAM,kBACN,MAAM,qBACN,MAAM,eACN,MAAM,UAuBhB;IAED;;;MAEC;IAED;eACwB,MAAM,GAAG,SAAS;gBAAU,MAAM,GAAG,SAAS;MAcrE;IAED,sBAGC;IAED,kBAEC;IAED,iCAEC;IAED,oEAYC;IAED,uFAWC;;CACJ;;;;iCAzpBY,eAAe,GAAG,QAAQ,GAAG,gBAAgB,GAAG,kBAAkB;4BAvBnC,uBAAuB;qBAP9C,qBAAqB;wBAElB,yBAAyB;qBAL5B,oBAAoB"}

package/dist/src/genomeSpyBase.js

@@ -31,6 +31,7 @@ import { createViewContext } from "./genomeSpy/viewContextFactory.js";
 import { prepareViewHierarchy } from "./genomeSpy/headlessBootstrap.js";
 import { exportCanvas } from "./genomeSpy/canvasExport.js";
 import { validateSelectorConstraints } from "./view/viewSelectors.js";
+import { resolveEmbedParam } from "./paramRuntime/embedParamApi.js";
 import SingleAxisWindowedSource from "./data/sources/lazy/singleAxisWindowedSource.js";
 import { ensureAssembliesForView } from "./genome/assemblyPreflight.js";
 import { resolveRootGenomeConfig } from "./genome/rootGenomeConfig.js";
@@ -171,6 +172,15 @@ export default class GenomeSpy {
         this.animator.requestRender();
     }
 
+    /**
+     * Returns a handle for a named parameter.
+     *
+     * @param {string} name
+     */
+    getParam(name) {
+        return resolveEmbedParam(this.viewRoot, name);
+    }
+
     /**
      * @param {string} type
      * @param {(event: any) => void} listener
@@ -360,6 +370,7 @@ export default class GenomeSpy {
                 this.#extraBroadcastListeners.add(type, listener),
             removeBroadcastListener: (type, listener) =>
                 this.#extraBroadcastListeners.remove(type, listener),
+            renderImmediately: this.renderAll.bind(this),
             isViewConfiguredVisible: this.viewVisibilityPredicate,
             isViewSpec: (spec) => this.viewFactory.isViewSpec(spec),
             getBaseConfig: () => baseConfig,

package/dist/src/index.d.ts

@@ -1,4 +1,5 @@
 export const embed: (el: HTMLElement | string, spec: import("./spec/root.js").RootSpec | string, options?: import("./types/embedApi.js").EmbedOptions) => Promise<import("./types/embedApi.js").EmbedResult>;
+export { intervalSelection } from "./selection/index.js";
 import GenomeSpy from "./genomeSpy.js";
 import { html } from "lit";
 import icon from "./img/bowtie.svg";

package/dist/src/index.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/index.js"],"names":[],"mappings":"AAWA,6MAA4C;sBAPtB,gBAAgB;qBAJjB,KAAK;iBAKT,kBAAkB;oBACf,6BAA6B;yBACX,mBAAmB"}
+{"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../src/index.js"],"names":[],"mappings":"AAWA,6MAA4C;;sBAPtB,gBAAgB;qBAJjB,KAAK;iBAKT,kBAAkB;oBACf,6BAA6B;yBACX,mBAAmB"}

package/dist/src/index.js

@@ -12,3 +12,4 @@ export { GenomeSpy, html, icon, favIcon };
 export const embed = createEmbed(GenomeSpy);
 
 export { loadSpec };
+export { intervalSelection } from "./selection/index.js";

package/dist/src/marks/__snapshots__/shaderSnapshot.test.js.snap

@@ -5488,8 +5488,8 @@ void main(void) {
 
     vec2 size = pos2 - pos1;
 
-    if (size.x <= 0.0 || size.y <= 0.0) {
-        // Early exit. May increase performance or not...
+    if (size.x < 0.0 || size.y < 0.0) {
+        // Keep zero-sized rects alive so min-size clamping can stabilize them.
         gl_Position = vec4(0.0, 0.0, 0.0, 1.0);
         return;
     }

package/dist/src/marks/mark.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"mark.d.ts","sourceRoot":"","sources":["../../../src/marks/mark.js"],"names":[],"mappings":"AA8DA,mCAAoC,sBAAsB,CAAC;AAC3D,mCAAoC,sBAAsB,CAAC;AAE3D,uCAAwC,oBAAoB,CAAC;AAE7D;;;;;;;;;;;;;GAaG;AAEH;;GAEG;AACH,0BAF0B,CAAC,SAAd,mCAAW;IAkBpB;;OAEG;IACH,sBAFW,OAAO,qBAAqB,EAAE,OAAO,EA4H/C;IAzHG,oFAAwB;IAGxB,8EAA8E;IAC9E,UADW,OAAO,CAAC,MAAM,uCAAU,OAAO,qBAAqB,EAAE,OAAO,CAAC,CAAC,CACjD;IAIzB;;;OAGG;IACH,sBAHU,OAAO,SAAS,EAAE,UAAU,GAAG;QAAE,iBAAiB,CAAC,EAAE,MAAM,CAAA;KAAE,CAG5C;IAE3B;;;;;;;OAOG;IACH,2BAHU,GAAG,CAAC,MAAM,EAAE,MAAM,CAAC,CAGG;IAEhC;;;OAGG;IACH,uBAHU,OAAO,SAAS,EAAE,WAAW,CAGX;IAE5B;;;OAGG;IACH,2BAHU,OAAO,SAAS,EAAE,eAAe,CAGX;IAEhC;;;OAGG;IACH,2BAHU,OAAO,SAAS,EAAE,gBAAgB,CAGZ;IAEhC;;;;;OAKG;IACH,2BAHU,OAAO,SAAS,EAAE,gBAAgB,CAGZ;IAEhC;;;;;OAKG;IACH,uCAA+B;IAE/B;;;;;OAKG;IACH,4BAA6B;IAE7B,kFAAkF;IAClF,UADW,QAAQ,CAAC,GAAG,CAAC,CACM;IAU9B,qBA6BE;IAEF;;;;;;OAMG;IACH,qBAHU,CAAC,CAQV;IAGL;;;OAGG;IACH,0CAHW,OAAO,CAAC,CAAC,CAAC,QAQpB;IAED,iEAEC;IAED,iBAKC;IAED;;;OAGG;IACH,sBAHW,MAAM,IAAI,qBACV,CAAC,QAAQ,EAAE,MAAM,IAAI,KAAK,IAAI,QAYxC;IAED,sBAEC;IAED;;;OAGG;IACH,0BAFa,WAAW,CAIvB;IAED;;;;;OAKG;IACH,2BAHa,OAAO,oBAAoB,EAAE,OAAO,EAAE,CAMlD;IAED;;OAEG;IACH,wBAFa,sCAAS,CAarB;IAED;;OAEG;IACH,4DAcC;IAED;;;;;OAKG;IACH,oGAEC;IAED;;;;;;OAMG;IACH,oDAHW,CAAC,MAAM,CAAC,CAAC,EAAE,QAqCrB;IAED;;;;OAIG;IACH,sDAiDC;IAED,wDAEC;IAED,gEAEC;IAED,uBAEC;IAED;;;OAGG;IACH,2BAEC;IAED;;OAEG;IACH,oCAEC;IAED;;OAEG;IACH,2BAEC;IAED,sEAeC;IAED;;;;;;OAMG;IACH,6CALW,MAAM,kBACN,MAAM,iBACN,MAAM,EAAE,QAmelB;IALG;;;;;;MAIC;IAGL;;;;;;OAMG;IACH,uCAwDC;IAED;;;;;;OAMG;IACH,+CAHW,MAAM,GACJ,CAAS,IAAG,EAAH,GAAG,KAAE,IAAI,CAe9B;IAED;;;;;;;;;;OAUG;IACH,mCALa,CAAC,eACH,MAAM,aACN,CAAC,aACD,CAAC,CAAC,EAAE,OAAO,CAAC,CAAC,yCAAU,KAAK,GAAG,QA6BzC;IAED;;OAEG;IACH,2BA+BC;IAED,gBAEC;IAED;;;OAGG;IACH,6BAFW,GAAG,QAyCb;IAED,yBAAyB;IACzB,uDAEC;IAED,yBAAyB;IACzB,iCAEC;IAED,yCAEC;IAED;;OAEG;IACH,gCAgBC;IAED;;OAEG;IACH,4CAOC;IAED;;;;;;;;OAQG;IACH,uBAHW,OAAO,uBAAuB,EAAE,sBAAsB,GACpD,CAAC,MAAM,IAAI,CAAC,EAAE,CA2E1B;IAED;;;;;;OAMG;IACH,qCAJW,oBAAoB,GAClB,OAAO,CAiCnB;IAED;;;;;;;OAOG;IACH,gBAJW,oBAAoB,GAClB,MAAW,IAAI,CAM3B;IAED;;;;OAIG;IACH,2BAJW,YAAY,WACZ,OAAO,WAAW,EAAE,oBAAoB,GACtC,MAAW,IAAI,CAkE3B;IAED;;;;;;;;OAQG;IACH,wBANW;QAAC,KAAK,EAAE,MAAM,CAAC;QAAC,MAAM,EAAE,MAAM,CAAA;KAAC,OAC/B,MAAM,UACN,OAAO,6BAA6B,EAAE,OAAO,aAC7C,OAAO,6BAA6B,EAAE,OAAO,GAC3C,OAAO,CAoHnB;IAED;;;;;;;;;OASG;IACH,qBAJW,MAAM,KACN,OAAO,oBAAoB,EAAE,MAAM,GACjC,GAAG,CAIf;;CACJ;+BAp+CY,OAAO,uBAAuB,EAAE,gBAAgB;;;;;;wBAEnD,OAAO;;mCAEJ,gBAAgB,GAAG,qBAAqB;oCAG1C,MAAM,SACN,MAAM;0BAEJ,YAAY,GAAG,UAAU,GAAG,WAAW;AA49CpD;;;GAGG;AACH,uBAFa,CAAC;IAGV,cAEC;IAkBD;;;OAGG;IACH,2BAFW,GAAG,CAAC,CAAC,EAAE,OAAO,yBAAyB,EAAE,UAAU,CAAC,QAiB9D;CACJ;0BAxiDyB,WAAW"}
+{"version":3,"file":"mark.d.ts","sourceRoot":"","sources":["../../../src/marks/mark.js"],"names":[],"mappings":"AA8DA,mCAAoC,sBAAsB,CAAC;AAC3D,mCAAoC,sBAAsB,CAAC;AAE3D,uCAAwC,oBAAoB,CAAC;AAE7D;;;;;;;;;;;;;GAaG;AAEH;;GAEG;AACH,0BAF0B,CAAC,SAAd,mCAAW;IAkBpB;;OAEG;IACH,sBAFW,OAAO,qBAAqB,EAAE,OAAO,EA4H/C;IAzHG,oFAAwB;IAGxB,8EAA8E;IAC9E,UADW,OAAO,CAAC,MAAM,uCAAU,OAAO,qBAAqB,EAAE,OAAO,CAAC,CAAC,CACjD;IAIzB;;;OAGG;IACH,sBAHU,OAAO,SAAS,EAAE,UAAU,GAAG;QAAE,iBAAiB,CAAC,EAAE,MAAM,CAAA;KAAE,CAG5C;IAE3B;;;;;;;OAOG;IACH,2BAHU,GAAG,CAAC,MAAM,EAAE,MAAM,CAAC,CAGG;IAEhC;;;OAGG;IACH,uBAHU,OAAO,SAAS,EAAE,WAAW,CAGX;IAE5B;;;OAGG;IACH,2BAHU,OAAO,SAAS,EAAE,eAAe,CAGX;IAEhC;;;OAGG;IACH,2BAHU,OAAO,SAAS,EAAE,gBAAgB,CAGZ;IAEhC;;;;;OAKG;IACH,2BAHU,OAAO,SAAS,EAAE,gBAAgB,CAGZ;IAEhC;;;;;OAKG;IACH,uCAA+B;IAE/B;;;;;OAKG;IACH,4BAA6B;IAE7B,kFAAkF;IAClF,UADW,QAAQ,CAAC,GAAG,CAAC,CACM;IAU9B,qBA6BE;IAEF;;;;;;OAMG;IACH,qBAHU,CAAC,CAQV;IAGL;;;OAGG;IACH,0CAHW,OAAO,CAAC,CAAC,CAAC,QAQpB;IAED,iEAEC;IAED,iBAKC;IAED;;;OAGG;IACH,sBAHW,MAAM,IAAI,qBACV,CAAC,QAAQ,EAAE,MAAM,IAAI,KAAK,IAAI,QAYxC;IAED,sBAEC;IAED;;;OAGG;IACH,0BAFa,WAAW,CAIvB;IAED;;;;;OAKG;IACH,2BAHa,OAAO,oBAAoB,EAAE,OAAO,EAAE,CAMlD;IAED;;OAEG;IACH,wBAFa,sCAAS,CAarB;IAED;;OAEG;IACH,4DAcC;IAED;;;;;OAKG;IACH,oGAEC;IAED;;;;;;OAMG;IACH,oDAHW,CAAC,MAAM,CAAC,CAAC,EAAE,QAqCrB;IAED;;;;OAIG;IACH,sDAiDC;IAED,wDAEC;IAED,gEAEC;IAED,uBAEC;IAED;;;OAGG;IACH,2BAEC;IAED;;OAEG;IACH,oCAEC;IAED;;OAEG;IACH,2BAEC;IAED,sEAeC;IAED;;;;;;OAMG;IACH,6CALW,MAAM,kBACN,MAAM,iBACN,MAAM,EAAE,QAmelB;IALG;;;;;;MAIC;IAGL;;;;;;OAMG;IACH,uCAwDC;IAED;;;;;;OAMG;IACH,+CAHW,MAAM,GACJ,CAAS,IAAG,EAAH,GAAG,KAAE,IAAI,CAe9B;IAED;;;;;;;;;;OAUG;IACH,mCALa,CAAC,eACH,MAAM,aACN,CAAC,aACD,CAAC,CAAC,EAAE,OAAO,CAAC,CAAC,yCAAU,KAAK,GAAG,QA6BzC;IAED;;OAEG;IACH,2BAyBC;IAED,gBAEC;IAED;;;OAGG;IACH,6BAFW,GAAG,QAyCb;IAED,yBAAyB;IACzB,uDAEC;IAED,yBAAyB;IACzB,iCAEC;IAED,yCAEC;IAED;;OAEG;IACH,gCAgBC;IAED;;OAEG;IACH,4CAOC;IAED;;;;;;;;OAQG;IACH,uBAHW,OAAO,uBAAuB,EAAE,sBAAsB,GACpD,CAAC,MAAM,IAAI,CAAC,EAAE,CA2E1B;IAED;;;;;;OAMG;IACH,qCAJW,oBAAoB,GAClB,OAAO,CAiCnB;IAED;;;;;;;OAOG;IACH,gBAJW,oBAAoB,GAClB,MAAW,IAAI,CAM3B;IAED;;;;OAIG;IACH,2BAJW,YAAY,WACZ,OAAO,WAAW,EAAE,oBAAoB,GACtC,MAAW,IAAI,CAkE3B;IAED;;;;;;;;OAQG;IACH,wBANW;QAAC,KAAK,EAAE,MAAM,CAAC;QAAC,MAAM,EAAE,MAAM,CAAA;KAAC,OAC/B,MAAM,UACN,OAAO,6BAA6B,EAAE,OAAO,aAC7C,OAAO,6BAA6B,EAAE,OAAO,GAC3C,OAAO,CAoHnB;IAED;;;;;;;;;OASG;IACH,qBAJW,MAAM,KACN,OAAO,oBAAoB,EAAE,MAAM,GACjC,GAAG,CAIf;;CACJ;+BA99CY,OAAO,uBAAuB,EAAE,gBAAgB;;;;;;wBAEnD,OAAO;;mCAEJ,gBAAgB,GAAG,qBAAqB;oCAG1C,MAAM,SACN,MAAM;0BAEJ,YAAY,GAAG,UAAU,GAAG,WAAW;AAs9CpD;;;GAGG;AACH,uBAFa,CAAC;IAGV,cAEC;IAkBD;;;OAGG;IACH,2BAFW,GAAG,CAAC,CAAC,EAAE,OAAO,yBAAyB,EAAE,UAAU,CAAC,QAiB9D;CACJ;0BAliDyB,WAAW"}

package/dist/src/marks/mark.js

@@ -1118,12 +1118,6 @@ export default class Mark {
         }
 
         if (this.bufferInfo) {
-            // A hack to prevent WebGL: INVALID_OPERATION: drawArrays: no buffer is bound to enabled attribute
-            // TODO: Consider using bufferSubData or DYNAMIC_DRAW etc...
-            for (let i = 0; i < 8; i++) {
-                gl.disableVertexAttribArray(i);
-            }
-
             Object.values(this.bufferInfo.attribs).forEach((attribInfo) =>
                 this.gl.deleteBuffer(attribInfo.buffer)
             );

package/dist/src/marks/rect.vertex.glsl.js

@@ -1,2 +1,2 @@
-const shader = "flat out lowp vec4 vFillColor;flat out lowp vec4 vStrokeColor;flat out float vHalfStrokeWidth;flat out vec4 vCornerRadii;\n#if defined(ROUNDED_CORNERS) || defined(STROKED) || defined(SHADOW)\nout vec2 vPosInPixels;\n#endif\nflat out vec2 vHalfSizeInPixels;/***Adjusts the vertex position to ensure that the rectangle is at least `minSpan`*wide or high. Returns a value that reflects the amount of clamping and can be*used to adjust the opacity of the rectangle.**pos: vertex position*frac: vertex position within the rectangle,[0,1]*size: width or height of the rectangle*minSize: minimum width or height of the rectangle*/float clampMinSize(inout float pos,float frac,float size,float minSize){if(minSize>0.0&&size<minSize){pos+=(frac-0.5)*(minSize-size);return size/minSize;}return 1.0;}void sort(inout float a,inout float b){if(a>b){float tmp=b;b=a;a=tmp;}}/***The vertex position wrt the rectangle specified by(x,x2,y,y2).*[0,0]=[x,y],[1,1]=[x2,y2].*The x or y component may contain fractional values if the rectangle*have been tessellated.*/vec2 getVertexPos(){int index=gl_VertexID % 6;return vec2(index==0||index==1||index==3 ? 0.0 : 1.0,index==0||index==1||index==2 ? 0.0 : 1.0);}void main(void){vec2 frac=getVertexPos();vec2 normalizedMinSize=vec2(uMinWidth,uMinHeight)/uViewportSize;vec4 cornerRadii=vec4(uCornerRadiusTopRight,uCornerRadiusBottomRight,uCornerRadiusTopLeft,uCornerRadiusBottomLeft);float x=getScaled_x();float x2=getScaled_x2();float y=getScaled_y();float y2=getScaled_y2();sort(x,x2);sort(y,y2);float clampMargin=1.0;vec2 pos1=vec2(clamp(x,0.0-clampMargin,1.0+clampMargin),y);vec2 pos2=vec2(clamp(x2,0.0-clampMargin,1.0+clampMargin),y2);vec2 size=pos2-pos1;if(size.x<=0.0||size.y<=0.0){gl_Position=vec4(0.0,0.0,0.0,1.0);return;}vec2 pos=pos1+frac*size;size.y*=getSampleFacetHeight(pos);float opaFactor=uViewOpacity*max(uMinOpacity,clampMinSize(pos.x,frac.x,size.x,normalizedMinSize.x)*clampMinSize(pos.y,frac.y,size.y,normalizedMinSize.y));size=max(size,normalizedMinSize);pos=applySampleFacet(pos);\n#if defined(ROUNDED_CORNERS) || defined(STROKED) || defined(SHADOW)\nfloat aaPadding=1.0/uDevicePixelRatio;float shadowPadding=uShadowBlur+max(abs(uShadowOffsetX),abs(uShadowOffsetY));float strokeWidth=getScaled_strokeWidth();float strokeOpacity=getScaled_strokeOpacity()*opaFactor;vec2 centeredFrac=frac-0.5;vec2 expand=centeredFrac*(strokeWidth+aaPadding+shadowPadding*2.0)/uViewportSize;pos+=expand;vec2 sizeInPixels=size*uViewportSize;vPosInPixels=(centeredFrac+expand/size)*sizeInPixels;vHalfSizeInPixels=sizeInPixels/2.0;vCornerRadii=min(cornerRadii,min(vHalfSizeInPixels.x,vHalfSizeInPixels.y));vHalfStrokeWidth=strokeWidth/2.0;vStrokeColor=vec4(getScaled_stroke()*strokeOpacity,strokeOpacity);\n#endif\ngl_Position=unitToNdc(pos);float fillOpacity=getScaled_fillOpacity()*opaFactor;vFillColor=vec4(getScaled_fill()*fillOpacity,fillOpacity);setupPicking();}";
+const shader = "flat out lowp vec4 vFillColor;flat out lowp vec4 vStrokeColor;flat out float vHalfStrokeWidth;flat out vec4 vCornerRadii;\n#if defined(ROUNDED_CORNERS) || defined(STROKED) || defined(SHADOW)\nout vec2 vPosInPixels;\n#endif\nflat out vec2 vHalfSizeInPixels;/***Adjusts the vertex position to ensure that the rectangle is at least `minSpan`*wide or high. Returns a value that reflects the amount of clamping and can be*used to adjust the opacity of the rectangle.**pos: vertex position*frac: vertex position within the rectangle,[0,1]*size: width or height of the rectangle*minSize: minimum width or height of the rectangle*/float clampMinSize(inout float pos,float frac,float size,float minSize){if(minSize>0.0&&size<minSize){pos+=(frac-0.5)*(minSize-size);return size/minSize;}return 1.0;}void sort(inout float a,inout float b){if(a>b){float tmp=b;b=a;a=tmp;}}/***The vertex position wrt the rectangle specified by(x,x2,y,y2).*[0,0]=[x,y],[1,1]=[x2,y2].*The x or y component may contain fractional values if the rectangle*have been tessellated.*/vec2 getVertexPos(){int index=gl_VertexID % 6;return vec2(index==0||index==1||index==3 ? 0.0 : 1.0,index==0||index==1||index==2 ? 0.0 : 1.0);}void main(void){vec2 frac=getVertexPos();vec2 normalizedMinSize=vec2(uMinWidth,uMinHeight)/uViewportSize;vec4 cornerRadii=vec4(uCornerRadiusTopRight,uCornerRadiusBottomRight,uCornerRadiusTopLeft,uCornerRadiusBottomLeft);float x=getScaled_x();float x2=getScaled_x2();float y=getScaled_y();float y2=getScaled_y2();sort(x,x2);sort(y,y2);float clampMargin=1.0;vec2 pos1=vec2(clamp(x,0.0-clampMargin,1.0+clampMargin),y);vec2 pos2=vec2(clamp(x2,0.0-clampMargin,1.0+clampMargin),y2);vec2 size=pos2-pos1;if(size.x<0.0||size.y<0.0){gl_Position=vec4(0.0,0.0,0.0,1.0);return;}vec2 pos=pos1+frac*size;size.y*=getSampleFacetHeight(pos);float opaFactor=uViewOpacity*max(uMinOpacity,clampMinSize(pos.x,frac.x,size.x,normalizedMinSize.x)*clampMinSize(pos.y,frac.y,size.y,normalizedMinSize.y));size=max(size,normalizedMinSize);pos=applySampleFacet(pos);\n#if defined(ROUNDED_CORNERS) || defined(STROKED) || defined(SHADOW)\nfloat aaPadding=1.0/uDevicePixelRatio;float shadowPadding=uShadowBlur+max(abs(uShadowOffsetX),abs(uShadowOffsetY));float strokeWidth=getScaled_strokeWidth();float strokeOpacity=getScaled_strokeOpacity()*opaFactor;vec2 centeredFrac=frac-0.5;vec2 expand=centeredFrac*(strokeWidth+aaPadding+shadowPadding*2.0)/uViewportSize;pos+=expand;vec2 sizeInPixels=size*uViewportSize;vPosInPixels=(centeredFrac+expand/size)*sizeInPixels;vHalfSizeInPixels=sizeInPixels/2.0;vCornerRadii=min(cornerRadii,min(vHalfSizeInPixels.x,vHalfSizeInPixels.y));vHalfStrokeWidth=strokeWidth/2.0;vStrokeColor=vec4(getScaled_stroke()*strokeOpacity,strokeOpacity);\n#endif\ngl_Position=unitToNdc(pos);float fillOpacity=getScaled_fillOpacity()*opaFactor;vFillColor=vec4(getScaled_fill()*fillOpacity,fillOpacity);setupPicking();}";
 export default shader;

package/dist/src/minimal.d.ts

@@ -1,4 +1,5 @@
 export const embed: (el: HTMLElement | string, spec: import("./spec/root.js").RootSpec | string, options?: import("./types/embedApi.js").EmbedOptions) => Promise<import("./types/embedApi.js").EmbedResult>;
+export { intervalSelection } from "./selection/index.js";
 import GenomeSpy from "./genomeSpyBase.js";
 import { html } from "lit";
 import icon from "./img/bowtie.svg";

package/dist/src/minimal.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"minimal.d.ts","sourceRoot":"","sources":["../../src/minimal.js"],"names":[],"mappings":"AAmBA,6MAA4C;sBARtB,oBAAoB;qBAJrB,KAAK;iBAKT,kBAAkB;oBACf,6BAA6B;yBACX,mBAAmB"}
+{"version":3,"file":"minimal.d.ts","sourceRoot":"","sources":["../../src/minimal.js"],"names":[],"mappings":"AAmBA,6MAA4C;;sBARtB,oBAAoB;qBAJrB,KAAK;iBAKT,kBAAkB;oBACf,6BAA6B;yBACX,mBAAmB"}

package/dist/src/minimal.js

@@ -20,3 +20,4 @@ export { GenomeSpy, html, icon, favIcon };
 export const embed = createEmbed(GenomeSpy);
 
 export { loadSpec };
+export { intervalSelection } from "./selection/index.js";

package/dist/src/paramRuntime/embedParamApi.d.ts

@@ -0,0 +1,26 @@
+/**
+ * @typedef {import("../view/view.js").default} View
+ * @typedef {import("../spec/parameter.js").Parameter} Parameter
+ * @typedef {import("../types/embedApi.js").ParamApi} ParamApi
+ */
+/**
+ * Returns a parameter handle for an explicit parameter exposed by the embed API.
+ *
+ * Current limitations:
+ *
+ * - Parameters are addressed by name only. Independent same-name parameters
+ *   throw an ambiguity error.
+ * - Computed `expr` parameters are readable but cannot be written.
+ * - Point selection parameters are readable but cannot be written through this
+ *   API because valid values require GenomeSpy-generated datum ids.
+ * - Projected selections are not supported.
+ *
+ * @param {View} root
+ * @param {string} name
+ * @returns {ParamApi}
+ */
+export function resolveEmbedParam(root: View, name: string): ParamApi;
+export type View = import("../view/view.js").default;
+export type Parameter = import("../spec/parameter.js").Parameter;
+export type ParamApi = import("../types/embedApi.js").ParamApi;
+//# sourceMappingURL=embedParamApi.d.ts.map

package/dist/src/paramRuntime/embedParamApi.d.ts.map

@@ -0,0 +1 @@
+{"version":3,"file":"embedParamApi.d.ts","sourceRoot":"","sources":["../../../src/paramRuntime/embedParamApi.js"],"names":[],"mappings":"AAKA;;;;GAIG;AAEH;;;;;;;;;;;;;;;GAeG;AACH,wCAJW,IAAI,QACJ,MAAM,GACJ,QAAQ,CA8DpB;mBAjFY,OAAO,iBAAiB,EAAE,OAAO;wBACjC,OAAO,sBAAsB,EAAE,SAAS;uBACxC,OAAO,sBAAsB,EAAE,QAAQ"}

package/dist/src/paramRuntime/embedParamApi.js

@@ -0,0 +1,133 @@
+import {
+    asSelectionConfig,
+    isPointSelectionConfig,
+} from "../selection/selection.js";
+
+/**
+ * @typedef {import("../view/view.js").default} View
+ * @typedef {import("../spec/parameter.js").Parameter} Parameter
+ * @typedef {import("../types/embedApi.js").ParamApi} ParamApi
+ */
+
+/**
+ * Returns a parameter handle for an explicit parameter exposed by the embed API.
+ *
+ * Current limitations:
+ *
+ * - Parameters are addressed by name only. Independent same-name parameters
+ *   throw an ambiguity error.
+ * - Computed `expr` parameters are readable but cannot be written.
+ * - Point selection parameters are readable but cannot be written through this
+ *   API because valid values require GenomeSpy-generated datum ids.
+ * - Projected selections are not supported.
+ *
+ * @param {View} root
+ * @param {string} name
+ * @returns {ParamApi}
+ */
+export function resolveEmbedParam(root, name) {
+    const matches = collectParamMatches(root, name);
+    if (!matches.length) {
+        throw new Error('Parameter "' + name + '" not found.');
+    }
+
+    const effectiveMatches = new Map();
+    for (const match of matches) {
+        const runtime = match.view.paramRuntime.findRuntimeForParam(name);
+        if (!runtime) {
+            throw new Error('Parameter "' + name + '" has no runtime value.');
+        }
+
+        effectiveMatches.set(runtime, {
+            runtime,
+            readOnly: hasExprParam(effectiveMatches.get(runtime), match),
+            pointSelection: hasPointSelectionParam(
+                effectiveMatches.get(runtime),
+                match
+            ),
+        });
+    }
+
+    if (effectiveMatches.size > 1) {
+        throw new Error('Parameter "' + name + '" is ambiguous.');
+    }
+
+    const { runtime, readOnly, pointSelection } = effectiveMatches
+        .values()
+        .next().value;
+
+    return {
+        getValue() {
+            return runtime.getValue(name);
+        },
+
+        setValue(value) {
+            if (readOnly) {
+                throw new Error(
+                    'Cannot set computed parameter "' + name + '".'
+                );
+            }
+            if (pointSelection) {
+                throw new Error(
+                    'Cannot set point selection parameter "' +
+                        name +
+                        '" through the embed API.'
+                );
+            }
+
+            runtime.setValue(name, value);
+            root.context.animator.requestRender();
+        },
+
+        subscribe(listener) {
+            return runtime.subscribe(name, () => {
+                listener(runtime.getValue(name));
+            });
+        },
+    };
+}
+
+/**
+ * @param {{ readOnly: boolean } | undefined} previous
+ * @param {{ param: Parameter }} match
+ * @returns {boolean}
+ */
+function hasExprParam(previous, match) {
+    return Boolean(previous?.readOnly || "expr" in match.param);
+}
+
+/**
+ * @param {{ pointSelection: boolean } | undefined} previous
+ * @param {{ param: Parameter }} match
+ * @returns {boolean}
+ */
+function hasPointSelectionParam(previous, match) {
+    if (previous?.pointSelection) {
+        return true;
+    }
+
+    const param = match.param;
+    return (
+        "select" in param &&
+        isPointSelectionConfig(asSelectionConfig(param.select))
+    );
+}
+
+/**
+ * @param {View} root
+ * @param {string} name
+ * @returns {{ view: View, param: Parameter }[]}
+ */
+function collectParamMatches(root, name) {
+    /** @type {{ view: View, param: Parameter }[]} */
+    const matches = [];
+
+    root.visit((view) => {
+        const param = view.paramRuntime.paramConfigs.get(name);
+        if (param) {
+            matches.push({ view, param });
+        }
+    });
+
+    return matches;
+}

package/dist/src/scales/scaleInteractionController.d.ts

@@ -4,6 +4,7 @@
  * @typedef {import("../spec/scale.js").ComplexDomain} ComplexDomain
  * @typedef {import("../spec/scale.js").ZoomParams} ZoomParams
  * @typedef {import("../types/encoder.js").VegaScale} VegaScale
+ * @typedef {import("../types/scaleResolutionApi.js").ZoomToOptions} ZoomToOptions
  * @typedef {VegaScale & { props: import("../spec/scale.js").Scale }} ScaleWithProps
  */
 export default class ScaleInteractionController {
@@ -11,14 +12,16 @@ export default class ScaleInteractionController {
      * @param {object} options
      * @param {() => ScaleWithProps} options.getScale
      * @param {() => import("../utils/animator.js").default} options.getAnimator
+     * @param {() => void} options.renderImmediately
      * @param {() => number[]} options.getInitialDomainSnapshot
      * @param {() => number[]} options.getResetDomain
      * @param {(domain: ScalarDomain | ComplexDomain) => number[]} options.fromComplexInterval
      * @param {() => number[]} options.getGenomeExtent
      */
-    constructor({ getScale, getAnimator, getInitialDomainSnapshot, getResetDomain, fromComplexInterval, getGenomeExtent, }: {
+    constructor({ getScale, getAnimator, renderImmediately, getInitialDomainSnapshot, getResetDomain, fromComplexInterval, getGenomeExtent, }: {
         getScale: () => ScaleWithProps;
         getAnimator: () => import("../utils/animator.js").default;
+        renderImmediately: () => void;
         getInitialDomainSnapshot: () => number[];
         getResetDomain: () => number[];
         fromComplexInterval: (domain: ScalarDomain | ComplexDomain) => number[];
@@ -52,10 +55,10 @@ export default class ScaleInteractionController {
      * Immediately zooms to the given interval.
      *
      * @param {NumericDomain | ComplexDomain} domain
-     * @param {boolean | number} [duration] an approximate duration for transition.
-     *      Zero duration zooms immediately. Boolean `true` indicates a default duration.
+     * @param {ZoomToOptions | boolean | number} [options] Zoom options.
+     *      Passing the duration directly as a boolean or number is deprecated.
      */
-    zoomTo(domain: NumericDomain | ComplexDomain, duration?: boolean | number): Promise<void>;
+    zoomTo(domain: NumericDomain | ComplexDomain, options?: ZoomToOptions | boolean | number): Promise<void>;
     /**
      * Resets the current domain to the initial one
      *
@@ -73,6 +76,7 @@ export type ScalarDomain = import("../spec/scale.js").ScalarDomain;
 export type ComplexDomain = import("../spec/scale.js").ComplexDomain;
 export type ZoomParams = import("../spec/scale.js").ZoomParams;
 export type VegaScale = import("../types/encoder.js").VegaScale;
+export type ZoomToOptions = import("../types/scaleResolutionApi.js").ZoomToOptions;
 export type ScaleWithProps = VegaScale & {
     props: import("../spec/scale.js").Scale;
 };

package/dist/src/scales/scaleInteractionController.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"scaleInteractionController.d.ts","sourceRoot":"","sources":["../../../src/scales/scaleInteractionController.js"],"names":[],"mappings":"AAuBA;;;;;;;;GAQG;AAEH;IAyBI;;;;;;;;;OASG;IACH,2IARG;QAAsC,QAAQ,EAAtC,MAAM,cAAc;QACkC,WAAW,EAAjE,MAAM,OAAO,sBAAsB,EAAE,OAAO;QACxB,iBAAiB,EAArC,MAAM,IAAI;QACc,wBAAwB,EAAhD,MAAM,MAAM,EAAE;QACU,cAAc,EAAtC,MAAM,MAAM,EAAE;QAC8C,mBAAmB,EAA/E,CAAC,MAAM,EAAE,YAAY,GAAG,aAAa,KAAK,MAAM,EAAE;QAC1B,eAAe,EAAvC,MAAM,MAAM,EAAE;KACxB,EAiBA;IAED,0BAUC;IAED,sBAEC;IAED,8BAGC;IAED;;;;OAIG;IACH,sCAJW,MAAM,EAAE,aACR,MAAM,EAAE,GACN,SAAS,GAAG,SAAS,GAAG,QAAQ,GAAG,MAAM,CAarD;IAED;;;;OAIG;IACH,oBAQC;IAED;;;;;;;OAOG;IACH,kBALW,MAAM,eACN,MAAM,OACN,MAAM,GACJ,OAAO,CA2BnB;IAED;;;;;;OAMG;IACH,eAJW,aAAa,GAAG,aAAa,YAC7B,aAAa,GAAG,OAAO,GAAG,MAAM,iBA0E1C;IASD;;;;OAIG;IACH,qBAcC;IAED;;OAEG;IACH,uBAOC;;CACJ;4BA9QY,OAAO,kBAAkB,EAAE,aAAa;2BACxC,OAAO,kBAAkB,EAAE,YAAY;4BACvC,OAAO,kBAAkB,EAAE,aAAa;yBACxC,OAAO,kBAAkB,EAAE,UAAU;wBACrC,OAAO,qBAAqB,EAAE,SAAS;4BACvC,OAAO,gCAAgC,EAAE,aAAa;6BACtD,SAAS,GAAG;IAAE,KAAK,EAAE,OAAO,kBAAkB,EAAE,KAAK,CAAA;CAAE"}