@jbrowse/plugin-sequence 3.7.0 → 4.0.1

package/dist/SequenceSearchAdapter/SequenceSearchAdapter.js

@@ -1,84 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-const BaseAdapter_1 = require("@jbrowse/core/data_adapters/BaseAdapter");
-const util_1 = require("@jbrowse/core/util");
-const rxjs_1 = require("@jbrowse/core/util/rxjs");
-const rxjs_2 = require("rxjs");
-const operators_1 = require("rxjs/operators");
-class SequenceSearchAdapter extends BaseAdapter_1.BaseFeatureDataAdapter {
-    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 = 10000;
-            const queryEnd = query.end + hw;
-            const queryStart = Math.max(0, query.start - hw);
-            if (queryEnd < 0 || queryStart > queryEnd) {
-                observer.complete();
-                return;
-            }
-            const ret = sequenceAdapter.getFeatures({
-                ...query,
-                start: queryStart,
-                end: queryEnd,
-            }, opts);
-            const feats = await (0, rxjs_2.firstValueFrom)(ret.pipe((0, operators_1.toArray)()));
-            const residues = ((_a = feats[0]) === null || _a === void 0 ? void 0 : _a.get('seq')) || '';
-            const search = this.getConf('search');
-            const searchForward = this.getConf('searchForward');
-            const searchReverse = this.getConf('searchReverse');
-            const caseInsensitive = this.getConf('caseInsensitive');
-            const re = new RegExp(search, `g${caseInsensitive ? 'i' : ''}`);
-            if (search) {
-                if (searchForward) {
-                    const matches = residues.matchAll(re);
-                    for (const match of matches) {
-                        const s = queryStart + match.index;
-                        const e = queryStart + match.index + match[0].length;
-                        if ((0, util_1.doesIntersect2)(s, e, query.start, query.end)) {
-                            observer.next(new util_1.SimpleFeature({
-                                uniqueId: `${this.id}-${s}-${match[0]}-pos`,
-                                refName: query.refName,
-                                start: s,
-                                end: e,
-                                name: match[0],
-                                strand: 1,
-                            }));
-                        }
-                    }
-                }
-                if (searchReverse) {
-                    const matches = (0, util_1.revcom)(residues).matchAll(re);
-                    for (const match of matches) {
-                        const e = queryEnd - match.index;
-                        const s = queryEnd - match.index - match[0].length;
-                        if ((0, util_1.doesIntersect2)(s, e, query.start, query.end)) {
-                            observer.next(new util_1.SimpleFeature({
-                                uniqueId: `${this.id}-${s}-${match[0]}-neg`,
-                                refName: query.refName,
-                                start: s,
-                                end: e,
-                                name: match[0],
-                                strand: -1,
-                            }));
-                        }
-                    }
-                }
-            }
-            observer.complete();
-        });
-    }
-}
-exports.default = SequenceSearchAdapter;

package/dist/SequenceSearchAdapter/configSchema.d.ts

@@ -1,24 +0,0 @@
-declare const configSchema: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-    search: {
-        type: string;
-        defaultValue: string;
-        description: string;
-    };
-    sequenceAdapter: {
-        type: string;
-        defaultValue: null;
-    };
-    searchForward: {
-        type: string;
-        defaultValue: boolean;
-    };
-    searchReverse: {
-        type: string;
-        defaultValue: boolean;
-    };
-    caseInsensitive: {
-        type: string;
-        defaultValue: boolean;
-    };
-}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
-export default configSchema;

package/dist/SequenceSearchAdapter/configSchema.js

@@ -1,28 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-const configuration_1 = require("@jbrowse/core/configuration");
-function x() { }
-const configSchema = (0, configuration_1.ConfigurationSchema)('SequenceSearchAdapter', {
-    search: {
-        type: 'string',
-        defaultValue: '',
-        description: 'Search string or regex to search for',
-    },
-    sequenceAdapter: {
-        type: 'frozen',
-        defaultValue: null,
-    },
-    searchForward: {
-        type: 'boolean',
-        defaultValue: true,
-    },
-    searchReverse: {
-        type: 'boolean',
-        defaultValue: true,
-    },
-    caseInsensitive: {
-        type: 'boolean',
-        defaultValue: true,
-    },
-}, { explicitlyTyped: true });
-exports.default = configSchema;

package/dist/SequenceSearchAdapter/index.d.ts

@@ -1,2 +0,0 @@
-import type PluginManager from '@jbrowse/core/PluginManager';
-export default function SequenceSearchAdapterF(pluginManager: PluginManager): void;

package/dist/SequenceSearchAdapter/index.js

@@ -1,54 +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 () {
-    var ownKeys = function(o) {
-        ownKeys = Object.getOwnPropertyNames || function (o) {
-            var ar = [];
-            for (var k in o) if (Object.prototype.hasOwnProperty.call(o, k)) ar[ar.length] = k;
-            return ar;
-        };
-        return ownKeys(o);
-    };
-    return function (mod) {
-        if (mod && mod.__esModule) return mod;
-        var result = {};
-        if (mod != null) for (var k = ownKeys(mod), i = 0; i < k.length; i++) if (k[i] !== "default") __createBinding(result, mod, k[i]);
-        __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 });
-exports.default = SequenceSearchAdapterF;
-const AdapterType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/AdapterType"));
-const configSchema_1 = __importDefault(require("./configSchema"));
-function SequenceSearchAdapterF(pluginManager) {
-    pluginManager.addAdapterType(() => {
-        return new AdapterType_1.default({
-            name: 'SequenceSearchAdapter',
-            displayName: 'Sequence search adapter',
-            adapterMetadata: {
-                hiddenFromGUI: true,
-            },
-            configSchema: configSchema_1.default,
-            getAdapterClass: () => Promise.resolve().then(() => __importStar(require('./SequenceSearchAdapter'))).then(r => r.default),
-        });
-    });
-}

package/dist/TwoBitAdapter/TwoBitAdapter.d.ts

@@ -1,28 +0,0 @@
-import { TwoBitFile } from '@gmod/twobit';
-import { BaseSequenceAdapter } from '@jbrowse/core/data_adapters/BaseAdapter';
-import type { Feature } from '@jbrowse/core/util/simpleFeature';
-import type { NoAssemblyRegion } from '@jbrowse/core/util/types';
-export default class TwoBitAdapter extends BaseSequenceAdapter {
-    protected setupP?: Promise<{
-        twobit: TwoBitFile;
-        chromSizesData: Record<string, number> | undefined;
-    }>;
-    private initChromSizes;
-    setupPre(): Promise<{
-        twobit: TwoBitFile;
-        chromSizesData: {
-            [k: string]: number;
-        } | undefined;
-    }>;
-    setup(): Promise<{
-        twobit: TwoBitFile;
-        chromSizesData: Record<string, number> | undefined;
-    }>;
-    getRefNames(): Promise<string[]>;
-    getRegions(): Promise<{
-        refName: string;
-        start: number;
-        end: number;
-    }[]>;
-    getFeatures({ refName, start, end }: NoAssemblyRegion): import("rxjs").Observable<Feature>;
-}

package/dist/TwoBitAdapter/TwoBitAdapter.js

@@ -1,85 +0,0 @@
-"use strict";
-var __importDefault = (this && this.__importDefault) || function (mod) {
-    return (mod && mod.__esModule) ? mod : { "default": mod };
-};
-Object.defineProperty(exports, "__esModule", { value: true });
-const twobit_1 = require("@gmod/twobit");
-const configuration_1 = require("@jbrowse/core/configuration");
-const BaseAdapter_1 = require("@jbrowse/core/data_adapters/BaseAdapter");
-const io_1 = require("@jbrowse/core/util/io");
-const rxjs_1 = require("@jbrowse/core/util/rxjs");
-const simpleFeature_1 = __importDefault(require("@jbrowse/core/util/simpleFeature"));
-class TwoBitAdapter extends BaseAdapter_1.BaseSequenceAdapter {
-    async initChromSizes() {
-        const conf = (0, configuration_1.readConfObject)(this.config, 'chromSizesLocation');
-        if (conf.uri !== '/path/to/default.chrom.sizes' && conf.uri !== '') {
-            const file = (0, io_1.openLocation)(conf, this.pluginManager);
-            const data = await file.readFile('utf8');
-            return Object.fromEntries(data
-                .split(/\n|\r\n|\r/)
-                .filter(line => !!line.trim())
-                .map(line => {
-                const [name, length] = line.split('\t');
-                return [name, +length];
-            }));
-        }
-        return undefined;
-    }
-    async setupPre() {
-        return {
-            twobit: new twobit_1.TwoBitFile({
-                filehandle: (0, io_1.openLocation)(this.getConf('twoBitLocation'), this.pluginManager),
-            }),
-            chromSizesData: await this.initChromSizes(),
-        };
-    }
-    async setup() {
-        if (!this.setupP) {
-            this.setupP = this.setupPre().catch((e) => {
-                this.setupP = undefined;
-                throw e;
-            });
-        }
-        return this.setupP;
-    }
-    async getRefNames() {
-        const { chromSizesData, twobit } = await this.setup();
-        return chromSizesData
-            ? Object.keys(chromSizesData)
-            : twobit.getSequenceNames();
-    }
-    async getRegions() {
-        const { chromSizesData, twobit } = await this.setup();
-        if (chromSizesData) {
-            return Object.keys(chromSizesData).map(refName => ({
-                refName,
-                start: 0,
-                end: chromSizesData[refName],
-            }));
-        }
-        else {
-            const refSizes = await twobit.getSequenceSizes();
-            return Object.keys(refSizes).map(refName => ({
-                refName,
-                start: 0,
-                end: refSizes[refName],
-            }));
-        }
-    }
-    getFeatures({ refName, start, end }) {
-        return (0, rxjs_1.ObservableCreate)(async (observer) => {
-            const { twobit } = await this.setup();
-            const size = await twobit.getSequenceSize(refName);
-            const regionEnd = size !== undefined ? Math.min(size, end) : end;
-            const seq = await twobit.getSequence(refName, start, regionEnd);
-            if (seq) {
-                observer.next(new simpleFeature_1.default({
-                    id: `${refName} ${start}-${regionEnd}`,
-                    data: { refName, start, end: regionEnd, seq },
-                }));
-            }
-            observer.complete();
-        });
-    }
-}
-exports.default = TwoBitAdapter;

package/dist/TwoBitAdapter/configSchema.d.ts

@@ -1,18 +0,0 @@
-declare const TwoBitAdapter: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-    twoBitLocation: {
-        type: string;
-        defaultValue: {
-            uri: string;
-            locationType: string;
-        };
-    };
-    chromSizesLocation: {
-        type: string;
-        defaultValue: {
-            uri: string;
-            locationType: string;
-        };
-        description: string;
-    };
-}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
-export default TwoBitAdapter;

package/dist/TwoBitAdapter/configSchema.js

@@ -1,43 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-const configuration_1 = require("@jbrowse/core/configuration");
-function x() { }
-const TwoBitAdapter = (0, configuration_1.ConfigurationSchema)('TwoBitAdapter', {
-    twoBitLocation: {
-        type: 'fileLocation',
-        defaultValue: {
-            uri: '/path/to/my.2bit',
-            locationType: 'UriLocation',
-        },
-    },
-    chromSizesLocation: {
-        type: 'fileLocation',
-        defaultValue: {
-            uri: '/path/to/default.chrom.sizes',
-            locationType: 'UriLocation',
-        },
-        description: 'An optional chrom.sizes file can be supplied to speed up loading since parsing the twobit file can take time',
-    },
-}, {
-    explicitlyTyped: true,
-    preProcessSnapshot: snap => {
-        return snap.uri
-            ? {
-                ...snap,
-                twoBitLocation: {
-                    uri: snap.uri,
-                    baseUri: snap.baseUri,
-                },
-                ...(snap.chromSizes
-                    ? {
-                        chromSizesLocation: {
-                            uri: snap.chromSizes,
-                            baseUri: snap.baseUri,
-                        },
-                    }
-                    : {}),
-            }
-            : snap;
-    },
-});
-exports.default = TwoBitAdapter;

package/dist/TwoBitAdapter/index.d.ts

@@ -1,2 +0,0 @@
-import type PluginManager from '@jbrowse/core/PluginManager';
-export default function TwoBitAdapterF(pluginManager: PluginManager): void;

package/dist/TwoBitAdapter/index.js

@@ -1,52 +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 () {
-    var ownKeys = function(o) {
-        ownKeys = Object.getOwnPropertyNames || function (o) {
-            var ar = [];
-            for (var k in o) if (Object.prototype.hasOwnProperty.call(o, k)) ar[ar.length] = k;
-            return ar;
-        };
-        return ownKeys(o);
-    };
-    return function (mod) {
-        if (mod && mod.__esModule) return mod;
-        var result = {};
-        if (mod != null) for (var k = ownKeys(mod), i = 0; i < k.length; i++) if (k[i] !== "default") __createBinding(result, mod, k[i]);
-        __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 });
-exports.default = TwoBitAdapterF;
-const AdapterType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/AdapterType"));
-const configSchema_1 = __importDefault(require("./configSchema"));
-function TwoBitAdapterF(pluginManager) {
-    pluginManager.addAdapterType(() => new AdapterType_1.default({
-        name: 'TwoBitAdapter',
-        displayName: 'TwoBit adapter',
-        configSchema: configSchema_1.default,
-        adapterMetadata: {
-            hiddenFromGUI: true,
-        },
-        getAdapterClass: () => Promise.resolve().then(() => __importStar(require('./TwoBitAdapter'))).then(r => r.default),
-    }));
-}

package/dist/UnindexedFastaAdapter/UnindexedFastaAdapter.d.ts

@@ -1,31 +0,0 @@
-import { BaseSequenceAdapter } from '@jbrowse/core/data_adapters/BaseAdapter';
-import type { BaseOptions } from '@jbrowse/core/data_adapters/BaseAdapter';
-import type { Feature } from '@jbrowse/core/util';
-import type { NoAssemblyRegion } from '@jbrowse/core/util/types';
-declare function parseSmallFasta(text: string): Map<string, {
-    readonly description: string;
-    readonly sequence: string;
-}>;
-export default class UnindexedFastaAdapter extends BaseSequenceAdapter {
-    protected setupP?: Promise<{
-        fasta: ReturnType<typeof parseSmallFasta>;
-    }>;
-    getRefNames(opts?: BaseOptions): Promise<string[]>;
-    getRegions(opts?: BaseOptions): Promise<{
-        refName: string;
-        start: number;
-        end: number;
-    }[]>;
-    setupPre(_opts?: BaseOptions): Promise<{
-        fasta: Map<any, {
-            readonly description: string;
-            readonly sequence: string;
-        }>;
-    }>;
-    getHeader(): Promise<string | null>;
-    setup(opts?: BaseOptions): Promise<{
-        fasta: ReturnType<typeof parseSmallFasta>;
-    }>;
-    getFeatures(region: NoAssemblyRegion, opts?: BaseOptions): import("rxjs").Observable<Feature>;
-}
-export {};

package/dist/UnindexedFastaAdapter/UnindexedFastaAdapter.js

@@ -1,86 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-const configuration_1 = require("@jbrowse/core/configuration");
-const BaseAdapter_1 = require("@jbrowse/core/data_adapters/BaseAdapter");
-const util_1 = require("@jbrowse/core/util");
-const io_1 = require("@jbrowse/core/util/io");
-const rxjs_1 = require("@jbrowse/core/util/rxjs");
-function parseSmallFasta(text) {
-    return new Map(text
-        .split('>')
-        .filter(t => /\S/.test(t))
-        .map(entryText => {
-        const [defLine, ...seqLines] = entryText.split('\n');
-        const [id, ...description] = defLine.split(' ');
-        const sequence = seqLines.join('').replace(/\s/g, '');
-        return [
-            id,
-            {
-                description: description.join(' '),
-                sequence,
-            },
-        ];
-    }));
-}
-class UnindexedFastaAdapter extends BaseAdapter_1.BaseSequenceAdapter {
-    async getRefNames(opts) {
-        const { fasta } = await this.setup(opts);
-        return [...fasta.keys()];
-    }
-    async getRegions(opts) {
-        const { fasta } = await this.setup(opts);
-        return [...fasta.entries()].map(([refName, data]) => ({
-            refName,
-            start: 0,
-            end: data.sequence.length,
-        }));
-    }
-    async setupPre(_opts) {
-        const fastaLocation = this.getConf('fastaLocation');
-        const res = parseSmallFasta(await (0, io_1.openLocation)(fastaLocation, this.pluginManager).readFile('utf8'));
-        return {
-            fasta: new Map([...res.entries()].map(([refName, val]) => {
-                return [
-                    (0, configuration_1.readConfObject)(this.config, 'rewriteRefNames', { refName }) ||
-                        refName,
-                    val,
-                ];
-            })),
-        };
-    }
-    async getHeader() {
-        const loc = this.getConf('metadataLocation');
-        return loc.uri === '' || loc.uri === '/path/to/fa.metadata.yaml'
-            ? null
-            : (0, io_1.openLocation)(loc, this.pluginManager).readFile('utf8');
-    }
-    async setup(opts) {
-        if (!this.setupP) {
-            this.setupP = this.setupPre(opts).catch((e) => {
-                this.setupP = undefined;
-                throw e;
-            });
-        }
-        return this.setupP;
-    }
-    getFeatures(region, opts) {
-        const { refName, start, end } = region;
-        return (0, rxjs_1.ObservableCreate)(async (observer) => {
-            const { fasta } = await this.setup(opts);
-            const entry = fasta.get(refName);
-            if (entry) {
-                observer.next(new util_1.SimpleFeature({
-                    id: `${refName}-${start}-${end}`,
-                    data: {
-                        refName,
-                        start,
-                        end,
-                        seq: entry.sequence.slice(start, end),
-                    },
-                }));
-            }
-            observer.complete();
-        });
-    }
-}
-exports.default = UnindexedFastaAdapter;

package/dist/UnindexedFastaAdapter/configSchema.d.ts

@@ -1,23 +0,0 @@
-declare const UnindexedFastaAdapter: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-    rewriteRefNames: {
-        type: string;
-        defaultValue: string;
-        contextVariable: string[];
-    };
-    fastaLocation: {
-        type: string;
-        defaultValue: {
-            uri: string;
-            locationType: string;
-        };
-    };
-    metadataLocation: {
-        description: string;
-        type: string;
-        defaultValue: {
-            uri: string;
-            locationType: string;
-        };
-    };
-}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
-export default UnindexedFastaAdapter;

package/dist/UnindexedFastaAdapter/configSchema.js

@@ -1,40 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-const configuration_1 = require("@jbrowse/core/configuration");
-function x() { }
-const UnindexedFastaAdapter = (0, configuration_1.ConfigurationSchema)('UnindexedFastaAdapter', {
-    rewriteRefNames: {
-        type: 'string',
-        defaultValue: '',
-        contextVariable: ['refName'],
-    },
-    fastaLocation: {
-        type: 'fileLocation',
-        defaultValue: {
-            uri: '/path/to/seq.fa',
-            locationType: 'UriLocation',
-        },
-    },
-    metadataLocation: {
-        description: 'Optional metadata file',
-        type: 'fileLocation',
-        defaultValue: {
-            uri: '/path/to/fa.metadata.yaml',
-            locationType: 'UriLocation',
-        },
-    },
-}, {
-    explicitlyTyped: true,
-    preProcessSnapshot: snap => {
-        return snap.uri
-            ? {
-                ...snap,
-                fastaLocation: {
-                    uri: snap.uri,
-                    baseUri: snap.baseUri,
-                },
-            }
-            : snap;
-    },
-});
-exports.default = UnindexedFastaAdapter;

package/dist/UnindexedFastaAdapter/index.d.ts

@@ -1,2 +0,0 @@
-import type PluginManager from '@jbrowse/core/PluginManager';
-export default function UnindexedFastaAdapterF(pluginManager: PluginManager): void;

package/dist/UnindexedFastaAdapter/index.js

@@ -1,54 +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 () {
-    var ownKeys = function(o) {
-        ownKeys = Object.getOwnPropertyNames || function (o) {
-            var ar = [];
-            for (var k in o) if (Object.prototype.hasOwnProperty.call(o, k)) ar[ar.length] = k;
-            return ar;
-        };
-        return ownKeys(o);
-    };
-    return function (mod) {
-        if (mod && mod.__esModule) return mod;
-        var result = {};
-        if (mod != null) for (var k = ownKeys(mod), i = 0; i < k.length; i++) if (k[i] !== "default") __createBinding(result, mod, k[i]);
-        __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 });
-exports.default = UnindexedFastaAdapterF;
-const AdapterType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/AdapterType"));
-const configSchema_1 = __importDefault(require("./configSchema"));
-function UnindexedFastaAdapterF(pluginManager) {
-    pluginManager.addAdapterType(() => {
-        return new AdapterType_1.default({
-            name: 'UnindexedFastaAdapter',
-            displayName: 'Unindexed FASTA adapter',
-            configSchema: configSchema_1.default,
-            adapterMetadata: {
-                hiddenFromGUI: true,
-            },
-            getAdapterClass: () => Promise.resolve().then(() => __importStar(require('./UnindexedFastaAdapter'))).then(r => r.default),
-        });
-    });
-}