@jbrowse/core 5.0.0-beta.13 → 5.0.0-beta.14

package/esm/data_adapters/BaseAdapter/featureDensity.d.ts

@@ -1,40 +0,0 @@
-/**
- * A density source's intervals over one region, the payload of the density
- * tier that stands in for the features a gated fetch refused: features per bin
- * for a `make-density` sidecar, whatever the bigWig measures otherwise, each
- * value a level over its span so a zoomed read means the same thing. Absolute
- * genomic coordinates.
- */
-export interface FeatureDensity {
-    starts: Uint32Array;
-    ends: Uint32Array;
-    scores: Float32Array;
-}
-/**
- * The slot a feature adapter spreads to take a density sidecar — a
- * quantitative sub-adapter (typically a BigWig of feature starts per bin) the
- * display reads at the view's bp/px in place of features the region-too-large
- * gate refused. Mirrors MAF's `summaryAdapter`: on the adapter, so the tier
- * names the file it summarizes.
- */
-export declare const densityAdapterConfigSchemaFields: {
-    /**
-     * #slot
-     */
-    readonly densityAdapter: {
-        readonly type: 'maybeFrozen';
-        readonly description: 'optional quantitative sub-adapter (e.g. a BigWigAdapter over a features-per-bin bigWig) drawn as a density band where the region is too large to fetch features; leave it unset to disable';
-    };
-};
-/**
- * Whether the `densityAdapter` slot holds something a sub-adapter can be built
- * from. Beside the slot because both ends of the tier ask it and they have to
- * agree: the display, deciding the band stands in, and `getFeatureDensity`,
- * resolving the sidecar. They disagreed — the display took any object, the
- * adapter wanted a type — so the shorthand every location slot accepts
- * (`{ uri }`) turned the band on for a read that answered `undefined`, which
- * commits nothing, and the phase then waited on bins no read would ever bring.
- */
-export declare function isSubAdapterConfig(value: unknown): value is Record<string, unknown> & {
-    type: string;
-};

package/esm/data_adapters/BaseAdapter/featureDensity.js

@@ -1,31 +0,0 @@
-/**
- * The slot a feature adapter spreads to take a density sidecar — a
- * quantitative sub-adapter (typically a BigWig of feature starts per bin) the
- * display reads at the view's bp/px in place of features the region-too-large
- * gate refused. Mirrors MAF's `summaryAdapter`: on the adapter, so the tier
- * names the file it summarizes.
- */
-export const densityAdapterConfigSchemaFields = {
-    /**
-     * #slot
-     */
-    densityAdapter: {
-        type: 'maybeFrozen',
-        description: 'optional quantitative sub-adapter (e.g. a BigWigAdapter over a features-per-bin bigWig) drawn as a density band where the region is too large to fetch features; leave it unset to disable',
-    },
-};
-/**
- * Whether the `densityAdapter` slot holds something a sub-adapter can be built
- * from. Beside the slot because both ends of the tier ask it and they have to
- * agree: the display, deciding the band stands in, and `getFeatureDensity`,
- * resolving the sidecar. They disagreed — the display took any object, the
- * adapter wanted a type — so the shorthand every location slot accepts
- * (`{ uri }`) turned the band on for a read that answered `undefined`, which
- * commits nothing, and the phase then waited on bins no read would ever bring.
- */
-export function isSubAdapterConfig(value) {
-    return (typeof value === 'object' &&
-        value !== null &&
-        'type' in value &&
-        typeof value.type === 'string');
-}

package/esm/rpc/methods/CoreGetFeatureDensity.d.ts

@@ -1,11 +0,0 @@
-import RpcMethodTypeWithRenameRegions from '../../pluggableElementTypes/RpcMethodTypeWithRenameRegions.ts';
-import type { RpcExecuteArgs } from '../RpcRegistry.ts';
-/**
- * The density tier's read: features per bin at the view's bp/px for regions the
- * region-too-large gate refused. Answers `undefined` for an adapter with no
- * density source, and the display keeps the banner.
- */
-export default class CoreGetFeatureDensity extends RpcMethodTypeWithRenameRegions<'CoreGetFeatureDensity'> {
-    name: 'CoreGetFeatureDensity';
-    execute(args: RpcExecuteArgs<'CoreGetFeatureDensity'>): Promise<import("../../data_adapters/BaseAdapter/featureDensity.ts").FeatureDensity[] | undefined>;
-}

package/esm/rpc/methods/CoreGetFeatureDensity.js

@@ -1,22 +0,0 @@
-import { isFeatureAdapter } from '../../data_adapters/BaseAdapter/index.js';
-import { getAdapter } from '../../data_adapters/dataAdapterCache.js';
-import RpcMethodTypeWithRenameRegions from '../../pluggableElementTypes/RpcMethodTypeWithRenameRegions.js';
-/**
- * The density tier's read: features per bin at the view's bp/px for regions the
- * region-too-large gate refused. Answers `undefined` for an adapter with no
- * density source, and the display keeps the banner.
- */
-export default class CoreGetFeatureDensity extends RpcMethodTypeWithRenameRegions {
-    name = 'CoreGetFeatureDensity';
-    async execute(args) {
-        const { adapterConfig, sessionId, regions, bpPerPx, signal } = args;
-        const { dataAdapter } = await getAdapter(this.pluginManager, sessionId, adapterConfig, args.sequenceAdapter);
-        return isFeatureAdapter(dataAdapter)
-            ? dataAdapter.getFeatureDensity(regions, {
-                bpPerPx,
-                signal,
-                statusCallback: args.statusCallback,
-            })
-            : undefined;
-    }
-}