@jbrowse/plugin-sequence 2.1.7 → 2.2.1

package/src/IndexedFastaAdapter/__snapshots__/IndexedFastaAdapter.test.ts.snap

@@ -1,8 +1,8 @@
 // Jest Snapshot v1, https://goo.gl/fbAQLP
 
 exports[`adapter can fetch sequence from volvox.fa 1`] = `
-Array [
-  Object {
+[
+  {
     "end": 20000,
     "refName": "ctgA",
     "seq": 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c",
@@ -12,4 +12,4 @@ Array [
 ]
 `;
 
-exports[`adapter can fetch sequence from volvox.fa 2`] = `Array []`;
+exports[`adapter can fetch sequence from volvox.fa 2`] = `[]`;

package/src/IndexedFastaAdapter/configSchema.ts

@@ -1,16 +1,30 @@
 import { ConfigurationSchema } from '@jbrowse/core/configuration'
 
-export default ConfigurationSchema(
+/**
+ * #config IndexedFastaAdapter
+ */
+function x() {} // eslint-disable-line @typescript-eslint/no-unused-vars
+
+const IndexedFastaAdapter = ConfigurationSchema(
   'IndexedFastaAdapter',
   {
+    /**
+     * #slot
+     */
     fastaLocation: {
       type: 'fileLocation',
       defaultValue: { uri: '/path/to/seq.fa', locationType: 'UriLocation' },
     },
+    /**
+     * #slot
+     */
     faiLocation: {
       type: 'fileLocation',
       defaultValue: { uri: '/path/to/seq.fa.fai', locationType: 'UriLocation' },
     },
+    /**
+     * #slot
+     */
     metadataLocation: {
       description: 'Optional metadata file',
       type: 'fileLocation',
@@ -22,3 +36,4 @@ export default ConfigurationSchema(
   },
   { explicitlyTyped: true },
 )
+export default IndexedFastaAdapter

package/src/LinearReferenceSequenceDisplay/configSchema.ts

@@ -1,8 +1,18 @@
 import { ConfigurationSchema } from '@jbrowse/core/configuration'
 import { default as divSequenceRendererConfigSchema } from '../DivSequenceRenderer/configSchema'
 
+/**
+ * #config LinearReferenceSequenceDisplay
+ */
+function x() {} // eslint-disable-line @typescript-eslint/no-unused-vars
+
 export const configSchema = ConfigurationSchema(
   'LinearReferenceSequenceDisplay',
-  { renderer: divSequenceRendererConfigSchema },
+  {
+    /**
+     * #slot
+     */
+    renderer: divSequenceRendererConfigSchema,
+  },
   { explicitIdentifier: 'displayId', explicitlyTyped: true },
 )

package/src/ReferenceSequenceTrack/configSchema.ts

@@ -3,22 +3,45 @@ import { types } from 'mobx-state-tree'
 import { ConfigurationSchema } from '@jbrowse/core/configuration'
 import PluginManager from '@jbrowse/core/PluginManager'
 
-/*
-Note: this is primarily a copy of createBaseTrackConfig, except with a subset
-of the config slots, to avoid including fields that don't make sense for the
-ReferenceSequenceTrack
-*/
+// Note: this is primarily a copy of createBaseTrackConfig, except with a
+// subset of the config slots, to avoid including fields that don't make sense
+// for the ReferenceSequenceTrack
+
+/**
+ * #config ReferenceSequenceTrack
+ * used to display base level DNA sequence tracks
+ */
+function x() {} // eslint-disable-line @typescript-eslint/no-unused-vars
+
 export function createReferenceSeqTrackConfig(pluginManager: PluginManager) {
   return ConfigurationSchema(
     'ReferenceSequenceTrack',
     {
+      /**
+       * #slot
+       * configuration for track adapter
+       */
       adapter: pluginManager.pluggableConfigSchemaType('adapter'),
+
+      /**
+       * #slot
+       * configuration for the displays e.g. LinearReferenceSequenceDisplay
+       */
       displays: types.array(pluginManager.pluggableConfigSchemaType('display')),
+
+      /**
+       * #slot
+       */
       name: {
         type: 'string',
-        description: 'optional track name',
+        description:
+          'optional track name, otherwise uses the "Reference sequence (assemblyName)"',
         defaultValue: '',
       },
+
+      /**
+       * #slot
+       */
       metadata: {
         type: 'frozen',
         description: 'anything to add about this track',
@@ -26,12 +49,19 @@ export function createReferenceSeqTrackConfig(pluginManager: PluginManager) {
       },
 
       formatAbout: ConfigurationSchema('FormatAbout', {
+        /**
+         * #slot formatAbout.config
+         */
         config: {
           type: 'frozen',
           description: 'formats configuration in about dialog',
           defaultValue: {},
           contextVariable: ['config'],
         },
+
+        /**
+         * #slot formatAbout.hideUris
+         */
         hideUris: {
           type: 'boolean',
           defaultValue: false,
@@ -60,6 +90,10 @@ export function createReferenceSeqTrackConfig(pluginManager: PluginManager) {
         }
         return { ...snap, displays }
       },
+      /**
+       * #identifier
+       * all tracks have a globally unique 'trackId'
+       */
       explicitIdentifier: 'trackId',
       explicitlyTyped: true,
       actions: (self: any) => ({

package/src/SequenceSearchAdapter/configSchema.ts

@@ -1,25 +1,45 @@
 import { ConfigurationSchema } from '@jbrowse/core/configuration'
 
+/**
+ * #config SequenceSearchAdapter
+ */
+function x() {} // eslint-disable-line @typescript-eslint/no-unused-vars
+
 const configSchema = ConfigurationSchema(
   'SequenceSearchAdapter',
   {
+    /**
+     * #slot
+     */
     search: {
       type: 'string',
       defaultValue: '',
       description: 'Search string or regex to search for',
     },
+    /**
+     * #slot
+     */
     sequenceAdapter: {
       type: 'frozen',
       defaultValue: null,
     },
+    /**
+     * #slot
+     */
     searchForward: {
       type: 'boolean',
       defaultValue: true,
     },
+    /**
+     * #slot
+     */
     searchReverse: {
       type: 'boolean',
       defaultValue: true,
     },
+    /**
+     * #slot
+     */
     caseInsensitive: {
       type: 'boolean',
       defaultValue: true,

package/src/TwoBitAdapter/__snapshots__/TwoBitAdapter.test.ts.snap

@@ -1,8 +1,8 @@
 // Jest Snapshot v1, https://goo.gl/fbAQLP
 
 exports[`adapter can fetch features from volvox.2bit 1`] = `
-Array [
-  Object {
+[
+  {
     "end": 20000,
     "refName": "ctgA",
     "seq": "cattgttgcggagttgaacaACGGCATTAGGAACACTTCCGTCTCtcacttttatacgattatgattggttctttagccttggtttagattggtagtagtagcggcgctaatgctacctgaattgagaactcgagcgggggctaggcaaattctgattcagcctgacttctcttggaaccctgcccataaatcaaagggttagtgcggccaaaacgttggacaacggtattagaagaccaacctgaccaccaaaccgtcaattaaccggtatcttctcggaaacggcggttctctcctagatagcgatctgtggtctcaccatgcaatttaaacaggtgagtaaagattgctacaaatacgagactagctgtcaccagatgctgttcatctgttggctccttggtcgctccgttgtacccaggctactttgaaagagcgcagaatacttagacggtatcgatcatggtagcatagcattctgataacatgtatggagttcgaacatccgtctggggccggacggtccgtttgaggttggttgatctgggtgatagtcagcaagatagacgttagataacaaattaaaggattttaccttagattgcgactagtacaacggtacatcggtgattcgcgctctactagatcacgctatgggtaccataaacaaacggtggaccttctcaagctggttgacgcctcagcaacataggcttcctcctccacgcatctcagcataaaaggcttataaactgcttctttgtgccagagcaactcaattaagcccttggtaccgtgggcacgcattctgtcacggtgaccaactgttcatcctgaatcgccgaatgggactatttggtacaggaatcaagcggatggcactactgcagcttatttacgacggtattcttaaagtttttaagacaatgtatttcatgggtagttcggtttgttttattgctacacaggctcttgtagacgacctacttagcactacggccgagcgcaataacccccggaaagcacttgctactgggaggcgggtttatccatcggcaataggggttatcagtactaccaagaagattgtgaagatattaacagcattgaaaaaagttcggactgggcatgaaacgtgtgtcagagttagagtccttgagggactgaatgggtttgtcccaggcccaagcttgaggtggatgtcacctcgggtactgcctctattacagaggtatcttaatggcgcatccagccttgtggctgggtctacgtacgcgtgggcaccatacgtatgttggcaggaaaggtcaatcatgcttgtttcctcgtcgcagaaacgttcacactattggctcgcgggatcgaacgggcctgattatttttccagctcctgcgttcctatcacgccaactgtcgctaataaaatgttatatagagataacccattgctatgcaaggatggagaaaccgcttcacaacaccctagaattacttcagcactaacatctaagataccgggaaaaccgtaggtgccacttggttttgagggcaatgcctcttgcactggcgattcgtggagtaaccttgctaccgatttccaccttttctaggtatgattacatgcgatcgccattgtcagtcgtcgtacgaaatccaggaaggaattcgaatacatgaccgaaagctatggcatcataagcgtggctctttactaaggacacgtgtagtcggctgatttcgcgcagaacttcgctcaccggacagtgactgctgtccgaacttgggggcagcgtagattctagctagagaccgcagcgaaaatgccactcgctaggtggctatggacgtccagctataggcccccacattcgtatgtatactccggtaattgagtctacctttcgaaagatcaaagttcacaaaccttctctcacgttaacatagatgctcgcacatagctagtccggtgataaagcggccgtgcatgcgagtatttagcgcacggaacagatattaggctgcgaaataccctcatatgctacagcgcaggtaacagacggttgatctccccgtagaattccctcaaggccggatcgttctcatgagtagcctttgtctgacatttcctctcaatagattgcagactcctgtgtcgtgggaaaacttcgcggaatcgctgtcgttacataaatctaaacagtgcagtccaagctatttactaccacgtatcataatgaacatctctttgtgaaatacgccggtacgccgagagatcgcccacattgcgtgtcaccaagacccagtgtctattgggcgcgctggttatagtatgcggaggcacccgatgtgctgctaatcactacaaactcgacaccaagaggcgaccgcgtgcgggagggctagaacgcgagagccacgtcaacgtggtggtaccgctcctgatgatacgagcactgtgctggcaccgctgccctatgtccagctaacaggtgtcacataatatcgcatctatagttgagtatcttatcgctagcgttacttgtgagttctcgggtagaatcgtcgtagcattctagtccttagcgtaagcaacgatatcgccgatattataggggcaataggtctcacccaccacgggtgtatatttaacgccctaagtagttaacggagactattaaacaattatgcacgtgaaagattagggtactgcacacgtgtcacgttgacgatgtaaacaccataaaggttgttctgtgatgcgatgcccatacctgcggtgcaacgtcctaaacttatgcggatcaccttctaattcagccgacgttgagaacgccagctatactctgtgagtacaaggtgaaagccccagatcaaaatattggagtcttgtccgtagctcttgggtggagagtgtgaccacgtttatcccttaatactgagactcttctcgttccacgccccggacattcgcgatacagcctagtttgataggtggctacaagggctctatccgaatagcacaaaactcagtcctagtgcgtataggtcgtgctctgcggttatacgctccacagaagaaagtacccactgcagtttgtcggtgggacttagcaaaacctgtaaccaaaaccgcacatggactctgttttggtggcgtggagtgtgcccgccgcctttatgctgggtcaaaatactatatgatttgttgtggtcgggcgcgacattggctcttatggtttataactattattcggtgcacagaaccgacttatgccccgattttgcacctcccgagagaaatggtactagtcattgtctcggggttttacaactcaaggataatctgccagcggtaccccgaaaaatcccatcccgaacggctggtacctatgctggagaccgaaatggagccagtgctatgcaaaccctcgctctttctatttggcccgaccagctgcgagagtcattcgacatacattgcgatggctggttcatctctctgcttcggattccgatcctgctgcctatggccacaacacgaaagagatcttggatacgtcctcaccatagtccaacggacaaatatggaggtgtacgcgcacggatacgagtacgacgggccgcccaatgctggtccttcgtgttatactgtttacttgcctccggtaagagtgtacagcttgtacccacgcggtggaggaccttacgcgtcgtccgcaggtgtggagatttcgctacctgttgcattggggcctcgccttacgtttttttcgacggaggcccgacccgccaggccagaccctcatcattgggatttttactgccttggacggcagattctgatgctggtaacgcgcttggcacacaccctggtcgtaattacgtactatcacctctattttaccaggggcgggccccgcctcaacgatcggtagtctcgttagaacagttgcttatactccgttagcactcacaactcggagaatgagcttacacagtccgtaatagtctccacagcttcccctggaaggttcgtacaggggccctggggtctaatgtgctaccgcctaacttcgttagtgtaaggtctcgtgtgcacctccaataacgctgcatttttgtatagaactcctttataggcctgactcttcggaacagcccactaattgacgtgcacgatgctgcatatacccttctcaatgacgcataccggtgactaaatcctgtggctggttgacactttgcataacccaccacgaaaacgcggtttgcacgtggttggaagcgagtaccggttaagggaagttacgtaaacccaacatagtgagcgatgcttaaaacactgcatgcgaacaacgaccggaacgagagcctaatagaaccaaatggataggtggttacgaaatccgcgcacaagtgtcgtgccactctcgtaaagaatgattgcttgcttatctatgagaaacctaataggcacgcacgtgtcgccagggaaaaaccaccatccgacaagacgctgaaaatcgagatagatgcagcccgcgcgtactttaagcacgatagccatcttgagcgcgacgattcagcttacggagattacttctcaaagcggacacctcgacgctgaagctctctatcgatgcacttgcatgtccatctacggcttgagcgaaccatgcttaacgcttggatgacgttgttagtcggattcgatcgtaccatactgtcctatccatcataacttcccgaattaaaactcattttctaccctcatttgtttcattggcgcatatgagcgccccatgggcgctgatcgacacaggcttgtagcgcacggctcgtcttgcagtagataaccatagtctttacgtcgcatatattaatatatcctcagacttccactgcggtattttggatcgtggcgtctgggacagtcacactctttaacgggagcgcgttcaatgtctgagtccatccgtgcagttcggtgcgatttta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c",
@@ -12,16 +12,16 @@ Array [
 ]
 `;
 
-exports[`adapter can fetch features from volvox.2bit 2`] = `Array []`;
+exports[`adapter can fetch features from volvox.2bit 2`] = `[]`;
 
 exports[`adapter can fetch regions from with chrom.sizes 1`] = `
-Array [
-  Object {
+[
+  {
     "end": 50001,
     "refName": "ctgA",
     "start": 0,
   },
-  Object {
+  {
     "end": 6079,
     "refName": "ctgB",
     "start": 0,

package/src/TwoBitAdapter/configSchema.ts

@@ -1,12 +1,23 @@
 import { ConfigurationSchema } from '@jbrowse/core/configuration'
 
-export default ConfigurationSchema(
+/**
+ * #config TwoBitAdapter
+ */
+function x() {} // eslint-disable-line @typescript-eslint/no-unused-vars
+
+const TwoBitAdapter = ConfigurationSchema(
   'TwoBitAdapter',
   {
+    /**
+     * #slot
+     */
     twoBitLocation: {
       type: 'fileLocation',
       defaultValue: { uri: '/path/to/my.2bit', locationType: 'UriLocation' },
     },
+    /**
+     * #slot
+     */
     chromSizesLocation: {
       type: 'fileLocation',
       defaultValue: {
@@ -19,3 +30,5 @@ export default ConfigurationSchema(
   },
   { explicitlyTyped: true },
 )
+
+export default TwoBitAdapter

package/src/__snapshots__/index.test.js.snap

@@ -1,5 +1,5 @@
 // Jest Snapshot v1, https://goo.gl/fbAQLP
 
-exports[`plugin in a stock JBrowse 1`] = `Object {}`;
+exports[`plugin in a stock JBrowse 1`] = `{}`;
 
-exports[`plugin in a stock JBrowse 2`] = `Object {}`;
+exports[`plugin in a stock JBrowse 2`] = `{}`;

package/src/index.ts

@@ -6,7 +6,6 @@ import DivSequenceRendererF from './DivSequenceRenderer'
 import BgzipFastaAdapterF from './BgzipFastaAdapter'
 import ChromSizesAdapterF from './ChromSizesAdapter'
 import IndexedFastaAdapterF from './IndexedFastaAdapter'
-import GCContentAdapterF from './GCContentAdapter'
 import SequenceSearchAdapterF from './SequenceSearchAdapter'
 import ReferenceSequenceTrackF from './ReferenceSequenceTrack'
 import LinearReferenceSequenceDisplayF from './LinearReferenceSequenceDisplay'
@@ -21,7 +20,6 @@ export default class SequencePlugin extends Plugin {
     BgzipFastaAdapterF(pluginManager)
     ChromSizesAdapterF(pluginManager)
     IndexedFastaAdapterF(pluginManager)
-    GCContentAdapterF(pluginManager)
     SequenceSearchAdapterF(pluginManager)
     ReferenceSequenceTrackF(pluginManager)
     LinearReferenceSequenceDisplayF(pluginManager)

package/dist/GCContentAdapter/GCContentAdapter.d.ts

@@ -1,17 +0,0 @@
-import { BaseFeatureDataAdapter, BaseOptions } from '@jbrowse/core/data_adapters/BaseAdapter';
-import { Feature, Region } from '@jbrowse/core/util';
-export default class extends BaseFeatureDataAdapter {
-    private windowSize;
-    private windowDelta;
-    private gcMode;
-    static capabilities: string[];
-    configure(): Promise<BaseFeatureDataAdapter>;
-    getRefNames(): Promise<string[]>;
-    getFeatures(query: Region, opts: BaseOptions): import("rxjs").Observable<Feature>;
-    /**
-     * called to provide a hint that data tied to a certain region
-     * will not be needed for the forseeable future and can be purged
-     * from caches, etc
-     */
-    freeResources(): void;
-}

package/dist/GCContentAdapter/GCContentAdapter.js

@@ -1,89 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-const BaseAdapter_1 = require("@jbrowse/core/data_adapters/BaseAdapter");
-const rxjs_1 = require("@jbrowse/core/util/rxjs");
-const util_1 = require("@jbrowse/core/util");
-const operators_1 = require("rxjs/operators");
-class default_1 extends BaseAdapter_1.BaseFeatureDataAdapter {
-    constructor() {
-        super(...arguments);
-        this.windowSize = 1000;
-        this.windowDelta = 1000;
-        this.gcMode = 'content';
-    }
-    async configure() {
-        var _a;
-        const adapter = await ((_a = this.getSubAdapter) === null || _a === void 0 ? void 0 : _a.call(this, this.getConf('sequenceAdapter')));
-        if (!adapter) {
-            throw new Error('Error getting subadapter');
-        }
-        return adapter.dataAdapter;
-    }
-    async getRefNames() {
-        const adapter = await this.configure();
-        return adapter.getRefNames();
-    }
-    getFeatures(query, opts) {
-        return (0, rxjs_1.ObservableCreate)(async (observer) => {
-            var _a;
-            const sequenceAdapter = await this.configure();
-            const hw = this.windowSize === 1 ? 1 : this.windowSize / 2; // Half the window size
-            const f = this.windowSize === 1;
-            let { start: queryStart, end: queryEnd } = query;
-            queryStart = Math.max(0, queryStart - hw);
-            queryEnd += hw;
-            if (queryEnd < 0 || queryStart > queryEnd) {
-                observer.complete();
-                return;
-            }
-            const ret = sequenceAdapter.getFeatures({
-                ...query,
-                start: queryStart,
-                end: queryEnd,
-            }, opts);
-            const feats = await ret.pipe((0, operators_1.toArray)()).toPromise();
-            const residues = ((_a = feats[0]) === null || _a === void 0 ? void 0 : _a.get('seq')) || '';
-            for (let i = hw; i < residues.length - hw; i += this.windowDelta) {
-                const r = f ? residues[i] : residues.slice(i - hw, i + hw);
-                let nc = 0;
-                let ng = 0;
-                let len = 0;
-                for (let j = 0; j < r.length; j++) {
-                    if (r[j] === 'c' || r[j] === 'C') {
-                        nc++;
-                    }
-                    else if (r[j] === 'g' || r[j] === 'G') {
-                        ng++;
-                    }
-                    if (r[j] !== 'N') {
-                        len++;
-                    }
-                }
-                const pos = queryStart;
-                let score;
-                if (this.gcMode === 'content') {
-                    score = (ng + nc) / (len || 1);
-                }
-                else if (this.gcMode === 'skew') {
-                    score = (ng - nc) / (ng + nc || 1);
-                }
-                observer.next(new util_1.SimpleFeature({
-                    uniqueId: `${this.id}_${pos + i}`,
-                    start: pos + i,
-                    end: pos + i + this.windowDelta,
-                    score,
-                }));
-            }
-            observer.complete();
-        });
-    }
-    /**
-     * called to provide a hint that data tied to a certain region
-     * will not be needed for the forseeable future and can be purged
-     * from caches, etc
-     */
-    freeResources( /* { region } */) { }
-}
-exports.default = default_1;
-default_1.capabilities = ['hasLocalStats'];
-//# sourceMappingURL=GCContentAdapter.js.map

package/dist/GCContentAdapter/GCContentAdapter.js.map

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package/dist/GCContentAdapter/configSchema.d.ts

@@ -1,3 +0,0 @@
-import PluginManager from '@jbrowse/core/PluginManager';
-declare const _default: (pluginManager: PluginManager) => import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
-export default _default;

package/dist/GCContentAdapter/configSchema.js

@@ -1,9 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-const configuration_1 = require("@jbrowse/core/configuration");
-exports.default = (pluginManager) => {
-    return (0, configuration_1.ConfigurationSchema)('GCContentAdapter', {
-        sequenceAdapter: pluginManager.pluggableConfigSchemaType('adapter'),
-    }, { explicitlyTyped: true });
-};
-//# sourceMappingURL=configSchema.js.map

package/dist/GCContentAdapter/configSchema.js.map

@@ -1 +0,0 @@
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package/dist/GCContentAdapter/index.d.ts

@@ -1,3 +0,0 @@
-import PluginManager from '@jbrowse/core/PluginManager';
-declare const _default: (pluginManager: PluginManager) => void;
-export default _default;

package/dist/GCContentAdapter/index.js

@@ -1,44 +0,0 @@
-"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 AdapterType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/AdapterType"));
-const configSchema_1 = __importDefault(require("./configSchema"));
-exports.default = (pluginManager) => {
-    pluginManager.addAdapterType(() => new AdapterType_1.default({
-        name: 'GCContentAdapter',
-        adapterMetadata: {
-            category: null,
-            hiddenFromGUI: true,
-            displayName: null,
-            description: null,
-        },
-        configSchema: (0, configSchema_1.default)(pluginManager),
-        getAdapterClass: () => Promise.resolve().then(() => __importStar(require('./GCContentAdapter'))).then(r => r.default),
-    }));
-};
-//# sourceMappingURL=index.js.map

package/dist/GCContentAdapter/index.js.map

@@ -1 +0,0 @@
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package/esm/GCContentAdapter/GCContentAdapter.d.ts

@@ -1,17 +0,0 @@
-import { BaseFeatureDataAdapter, BaseOptions } from '@jbrowse/core/data_adapters/BaseAdapter';
-import { Feature, Region } from '@jbrowse/core/util';
-export default class extends BaseFeatureDataAdapter {
-    private windowSize;
-    private windowDelta;
-    private gcMode;
-    static capabilities: string[];
-    configure(): Promise<BaseFeatureDataAdapter>;
-    getRefNames(): Promise<string[]>;
-    getFeatures(query: Region, opts: BaseOptions): import("rxjs").Observable<Feature>;
-    /**
-     * called to provide a hint that data tied to a certain region
-     * will not be needed for the forseeable future and can be purged
-     * from caches, etc
-     */
-    freeResources(): void;
-}