@jbrowse/plugin-gff3 2.11.0 → 2.11.2

package/dist/Gff3Adapter/Gff3Adapter.d.ts

@@ -2,15 +2,16 @@ import { BaseFeatureDataAdapter, BaseOptions } from '@jbrowse/core/data_adapters
 import { NoAssemblyRegion } from '@jbrowse/core/util/types';
 import IntervalTree from '@flatten-js/interval-tree';
 import { Feature } from '@jbrowse/core/util/simpleFeature';
-export default class extends BaseFeatureDataAdapter {
+export default class Gff3Adapter extends BaseFeatureDataAdapter {
+    calculatedIntervalTreeMap: Record<string, IntervalTree>;
     protected gffFeatures?: Promise<{
         header: string;
-        intervalTree: Record<string, IntervalTree>;
+        intervalTreeMap: Record<string, (sc?: (arg: string) => void) => IntervalTree>;
     }>;
     private loadDataP;
     private loadData;
-    getRefNames(_opts?: BaseOptions): Promise<string[]>;
-    getHeader(): Promise<string>;
+    getRefNames(opts?: BaseOptions): Promise<string[]>;
+    getHeader(opts?: BaseOptions): Promise<string>;
     getFeatures(query: NoAssemblyRegion, opts?: BaseOptions): import("rxjs").Observable<Feature>;
     private featureData;
     freeResources(): void;

package/dist/Gff3Adapter/Gff3Adapter.js

@@ -13,57 +13,91 @@ const gff_1 = __importDefault(require("@gmod/gff"));
 function isGzip(buf) {
     return buf[0] === 31 && buf[1] === 139 && buf[2] === 8;
 }
-class default_1 extends BaseAdapter_1.BaseFeatureDataAdapter {
-    async loadDataP() {
+const decoder = typeof TextDecoder !== 'undefined' ? new TextDecoder('utf8') : undefined;
+class Gff3Adapter extends BaseAdapter_1.BaseFeatureDataAdapter {
+    constructor() {
+        super(...arguments);
+        this.calculatedIntervalTreeMap = {};
+    }
+    async loadDataP(opts) {
+        const { statusCallback = () => { } } = opts || {};
         const pm = this.pluginManager;
         const buf = await (0, io_1.openLocation)(this.getConf('gffLocation'), pm).readFile();
         const buffer = isGzip(buf) ? await (0, bgzf_filehandle_1.unzip)(buf) : buf;
-        // 512MB  max chrome string length is 512MB
-        if (buffer.length > 536870888) {
-            throw new Error('Data exceeds maximum string length (512MB)');
-        }
-        const data = new TextDecoder('utf8', { fatal: true }).decode(buffer);
-        const lines = data.split(/\n|\r\n|\r/);
         const headerLines = [];
-        for (let i = 0; i < lines.length && lines[i].startsWith('#'); i++) {
-            headerLines.push(lines[i]);
-        }
-        const header = headerLines.join('\n');
-        const feats = gff_1.default.parseStringSync(data, {
-            parseFeatures: true,
-            parseComments: false,
-            parseDirectives: false,
-            parseSequences: false,
-            disableDerivesFromReferences: true,
-        });
-        const intervalTree = {};
-        for (const obj of feats.flat().map((f, i) => new simpleFeature_1.default({
-            data: this.featureData(f),
-            id: `${this.id}-offset-${i}`,
-        }))) {
-            const key = obj.get('refName');
-            if (!intervalTree[key]) {
-                intervalTree[key] = new interval_tree_1.default();
+        const featureMap = {};
+        let blockStart = 0;
+        let i = 0;
+        while (blockStart < buffer.length) {
+            const n = buffer.indexOf('\n', blockStart);
+            // could be a non-newline ended file, so slice to end of file if n===-1
+            const b = n === -1 ? buffer.slice(blockStart) : buffer.slice(blockStart, n);
+            const line = ((decoder === null || decoder === void 0 ? void 0 : decoder.decode(b)) || b.toString()).trim();
+            if (line) {
+                if (line.startsWith('#')) {
+                    headerLines.push(line);
+                }
+                else if (line.startsWith('>')) {
+                    break;
+                }
+                else {
+                    const ret = line.indexOf('\t');
+                    const refName = line.slice(0, ret);
+                    if (!featureMap[refName]) {
+                        featureMap[refName] = '';
+                    }
+                    featureMap[refName] += line + '\n';
+                }
+            }
+            if (i++ % 10000 === 0) {
+                statusCallback(`Loading ${Math.floor(blockStart / 1000000).toLocaleString('en-US')}/${Math.floor(buffer.length / 1000000).toLocaleString('en-US')} MB`);
             }
-            intervalTree[key].insert([obj.get('start'), obj.get('end')], obj);
+            blockStart = n + 1;
         }
-        return { header, intervalTree };
+        const intervalTreeMap = Object.fromEntries(Object.entries(featureMap).map(([refName, lines]) => {
+            return [
+                refName,
+                (sc) => {
+                    sc === null || sc === void 0 ? void 0 : sc(`Parsing GFF data`);
+                    if (!this.calculatedIntervalTreeMap[refName]) {
+                        const intervalTree = new interval_tree_1.default();
+                        gff_1.default
+                            .parseStringSync(lines, {
+                            parseFeatures: true,
+                            parseComments: false,
+                            parseDirectives: false,
+                            parseSequences: false,
+                            disableDerivesFromReferences: true,
+                        })
+                            .flat()
+                            .map((f, i) => new simpleFeature_1.default({
+                            data: this.featureData(f),
+                            id: `${this.id}-${refName}-${i}`,
+                        }))
+                            .forEach(obj => intervalTree.insert([obj.get('start'), obj.get('end')], obj));
+                        this.calculatedIntervalTreeMap[refName] = intervalTree;
+                    }
+                    return this.calculatedIntervalTreeMap[refName];
+                },
+            ];
+        }));
+        return { header: headerLines.join('\n'), intervalTreeMap };
     }
-    async loadData() {
+    async loadData(opts) {
         if (!this.gffFeatures) {
-            this.gffFeatures = this.loadDataP().catch(e => {
+            this.gffFeatures = this.loadDataP(opts).catch(e => {
                 this.gffFeatures = undefined;
                 throw e;
             });
         }
         return this.gffFeatures;
     }
-    async getRefNames(_opts = {}) {
-        const { intervalTree } = await this.loadData();
-        return Object.keys(intervalTree);
+    async getRefNames(opts = {}) {
+        const { intervalTreeMap } = await this.loadData(opts);
+        return Object.keys(intervalTreeMap);
     }
-    async getHeader() {
-        const { header } = await this.loadData();
+    async getHeader(opts = {}) {
+        const { header } = await this.loadData(opts);
         return header;
     }
     getFeatures(query, opts = {}) {
@@ -71,8 +105,8 @@ class default_1 extends BaseAdapter_1.BaseFeatureDataAdapter {
             var _a;
             try {
                 const { start, end, refName } = query;
-                const { intervalTree } = await this.loadData();
-                (_a = intervalTree[refName]) === null || _a === void 0 ? void 0 : _a.search([start, end]).forEach(f => observer.next(f));
+                const { intervalTreeMap } = await this.loadData(opts);
+                (_a = intervalTreeMap[refName](opts.statusCallback)) === null || _a === void 0 ? void 0 : _a.search([start, end]).forEach(f => observer.next(f));
                 observer.complete();
             }
             catch (e) {
@@ -144,4 +178,4 @@ class default_1 extends BaseAdapter_1.BaseFeatureDataAdapter {
     }
     freeResources( /* { region } */) { }
 }
-exports.default = default_1;
+exports.default = Gff3Adapter;

package/dist/Gff3Adapter/index.d.ts

@@ -1,3 +1,2 @@
 import PluginManager from '@jbrowse/core/PluginManager';
-declare const _default: (pluginManager: PluginManager) => void;
-export default _default;
+export default function Gff3AdapterF(pluginManager: PluginManager): void;

package/dist/Gff3Adapter/index.js

@@ -28,11 +28,12 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
 Object.defineProperty(exports, "__esModule", { value: true });
 const pluggableElementTypes_1 = require("@jbrowse/core/pluggableElementTypes");
 const configSchema_1 = __importDefault(require("./configSchema"));
-exports.default = (pluginManager) => {
+function Gff3AdapterF(pluginManager) {
     pluginManager.addAdapterType(() => new pluggableElementTypes_1.AdapterType({
         name: 'Gff3Adapter',
         displayName: 'GFF3 adapter',
         configSchema: configSchema_1.default,
         getAdapterClass: () => Promise.resolve().then(() => __importStar(require('./Gff3Adapter'))).then(r => r.default),
     }));
-};
+}
+exports.default = Gff3AdapterF;

package/dist/Gff3TabixAdapter/Gff3TabixAdapter.d.ts

@@ -5,7 +5,7 @@ import { TabixIndexedFile } from '@gmod/tabix';
 import { AnyConfigurationModel } from '@jbrowse/core/configuration';
 import PluginManager from '@jbrowse/core/PluginManager';
 import { getSubAdapterType } from '@jbrowse/core/data_adapters/dataAdapterCache';
-export default class extends BaseFeatureDataAdapter {
+export default class Gff3TabixAdapter extends BaseFeatureDataAdapter {
     protected gff: TabixIndexedFile;
     protected dontRedispatch: string[];
     constructor(config: AnyConfigurationModel, getSubAdapter?: getSubAdapterType, pluginManager?: PluginManager);

package/dist/Gff3TabixAdapter/Gff3TabixAdapter.js

@@ -12,7 +12,7 @@ const simpleFeature_1 = __importDefault(require("@jbrowse/core/util/simpleFeatur
 const tabix_1 = require("@gmod/tabix");
 const gff_1 = __importDefault(require("@gmod/gff"));
 const configuration_1 = require("@jbrowse/core/configuration");
-class default_1 extends BaseAdapter_1.BaseFeatureDataAdapter {
+class Gff3TabixAdapter extends BaseAdapter_1.BaseFeatureDataAdapter {
     constructor(config, getSubAdapter, pluginManager) {
         super(config, getSubAdapter, pluginManager);
         const gffGzLocation = (0, configuration_1.readConfObject)(config, 'gffGzLocation');
@@ -186,4 +186,4 @@ class default_1 extends BaseAdapter_1.BaseFeatureDataAdapter {
     }
     freeResources( /* { region } */) { }
 }
-exports.default = default_1;
+exports.default = Gff3TabixAdapter;

package/dist/Gff3TabixAdapter/index.d.ts

@@ -1,3 +1,2 @@
 import PluginManager from '@jbrowse/core/PluginManager';
-declare const _default: (pluginManager: PluginManager) => void;
-export default _default;
+export default function Gff3TabixAdapterF(pluginManager: PluginManager): void;

package/dist/Gff3TabixAdapter/index.js

@@ -28,11 +28,12 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
 Object.defineProperty(exports, "__esModule", { value: true });
 const pluggableElementTypes_1 = require("@jbrowse/core/pluggableElementTypes");
 const configSchema_1 = __importDefault(require("./configSchema"));
-exports.default = (pluginManager) => {
+function Gff3TabixAdapterF(pluginManager) {
     pluginManager.addAdapterType(() => new pluggableElementTypes_1.AdapterType({
         name: 'Gff3TabixAdapter',
         displayName: 'GFF3 tabix adapter',
         configSchema: configSchema_1.default,
         getAdapterClass: () => Promise.resolve().then(() => __importStar(require('./Gff3TabixAdapter'))).then(r => r.default),
     }));
-};
+}
+exports.default = Gff3TabixAdapterF;

package/dist/GuessGff3/index.d.ts

@@ -1,3 +1,2 @@
 import PluginManager from '@jbrowse/core/PluginManager';
-declare const _default: (pluginManager: PluginManager) => void;
-export default _default;
+export default function GuessGff3F(pluginManager: PluginManager): void;

package/dist/GuessGff3/index.js

@@ -1,7 +1,7 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
 const tracks_1 = require("@jbrowse/core/util/tracks");
-exports.default = (pluginManager) => {
+function GuessGff3F(pluginManager) {
     pluginManager.addToExtensionPoint('Core-guessAdapterForLocation', (adapterGuesser) => {
         return (file, index, adapterHint) => {
             const regexGuess = /\.gff3?\.b?gz$/i;
@@ -40,4 +40,5 @@ exports.default = (pluginManager) => {
             return adapterGuesser(file, index, adapterHint);
         };
     });
-};
+}
+exports.default = GuessGff3F;

package/dist/index.d.ts

@@ -1,6 +1,6 @@
 import PluginManager from '@jbrowse/core/PluginManager';
 import Plugin from '@jbrowse/core/Plugin';
-export default class extends Plugin {
+export default class GFF3Plugin extends Plugin {
     name: string;
     install(pluginManager: PluginManager): void;
 }

package/dist/index.js

@@ -7,7 +7,7 @@ const Plugin_1 = __importDefault(require("@jbrowse/core/Plugin"));
 const Gff3TabixAdapter_1 = __importDefault(require("./Gff3TabixAdapter"));
 const Gff3Adapter_1 = __importDefault(require("./Gff3Adapter"));
 const GuessGff3_1 = __importDefault(require("./GuessGff3"));
-class default_1 extends Plugin_1.default {
+class GFF3Plugin extends Plugin_1.default {
     constructor() {
         super(...arguments);
         this.name = 'GFF3Plugin';
@@ -18,4 +18,4 @@ class default_1 extends Plugin_1.default {
         (0, GuessGff3_1.default)(pluginManager);
     }
 }
-exports.default = default_1;
+exports.default = GFF3Plugin;

package/esm/Gff3Adapter/Gff3Adapter.d.ts

@@ -2,15 +2,16 @@ import { BaseFeatureDataAdapter, BaseOptions } from '@jbrowse/core/data_adapters
 import { NoAssemblyRegion } from '@jbrowse/core/util/types';
 import IntervalTree from '@flatten-js/interval-tree';
 import { Feature } from '@jbrowse/core/util/simpleFeature';
-export default class extends BaseFeatureDataAdapter {
+export default class Gff3Adapter extends BaseFeatureDataAdapter {
+    calculatedIntervalTreeMap: Record<string, IntervalTree>;
     protected gffFeatures?: Promise<{
         header: string;
-        intervalTree: Record<string, IntervalTree>;
+        intervalTreeMap: Record<string, (sc?: (arg: string) => void) => IntervalTree>;
     }>;
     private loadDataP;
     private loadData;
-    getRefNames(_opts?: BaseOptions): Promise<string[]>;
-    getHeader(): Promise<string>;
+    getRefNames(opts?: BaseOptions): Promise<string[]>;
+    getHeader(opts?: BaseOptions): Promise<string>;
     getFeatures(query: NoAssemblyRegion, opts?: BaseOptions): import("rxjs").Observable<Feature>;
     private featureData;
     freeResources(): void;

package/esm/Gff3Adapter/Gff3Adapter.js

@@ -8,57 +8,91 @@ import gff from '@gmod/gff';
 function isGzip(buf) {
     return buf[0] === 31 && buf[1] === 139 && buf[2] === 8;
 }
-export default class extends BaseFeatureDataAdapter {
-    async loadDataP() {
+const decoder = typeof TextDecoder !== 'undefined' ? new TextDecoder('utf8') : undefined;
+export default class Gff3Adapter extends BaseFeatureDataAdapter {
+    constructor() {
+        super(...arguments);
+        this.calculatedIntervalTreeMap = {};
+    }
+    async loadDataP(opts) {
+        const { statusCallback = () => { } } = opts || {};
         const pm = this.pluginManager;
         const buf = await openLocation(this.getConf('gffLocation'), pm).readFile();
         const buffer = isGzip(buf) ? await unzip(buf) : buf;
-        // 512MB  max chrome string length is 512MB
-        if (buffer.length > 536870888) {
-            throw new Error('Data exceeds maximum string length (512MB)');
-        }
-        const data = new TextDecoder('utf8', { fatal: true }).decode(buffer);
-        const lines = data.split(/\n|\r\n|\r/);
         const headerLines = [];
-        for (let i = 0; i < lines.length && lines[i].startsWith('#'); i++) {
-            headerLines.push(lines[i]);
-        }
-        const header = headerLines.join('\n');
-        const feats = gff.parseStringSync(data, {
-            parseFeatures: true,
-            parseComments: false,
-            parseDirectives: false,
-            parseSequences: false,
-            disableDerivesFromReferences: true,
-        });
-        const intervalTree = {};
-        for (const obj of feats.flat().map((f, i) => new SimpleFeature({
-            data: this.featureData(f),
-            id: `${this.id}-offset-${i}`,
-        }))) {
-            const key = obj.get('refName');
-            if (!intervalTree[key]) {
-                intervalTree[key] = new IntervalTree();
+        const featureMap = {};
+        let blockStart = 0;
+        let i = 0;
+        while (blockStart < buffer.length) {
+            const n = buffer.indexOf('\n', blockStart);
+            // could be a non-newline ended file, so slice to end of file if n===-1
+            const b = n === -1 ? buffer.slice(blockStart) : buffer.slice(blockStart, n);
+            const line = ((decoder === null || decoder === void 0 ? void 0 : decoder.decode(b)) || b.toString()).trim();
+            if (line) {
+                if (line.startsWith('#')) {
+                    headerLines.push(line);
+                }
+                else if (line.startsWith('>')) {
+                    break;
+                }
+                else {
+                    const ret = line.indexOf('\t');
+                    const refName = line.slice(0, ret);
+                    if (!featureMap[refName]) {
+                        featureMap[refName] = '';
+                    }
+                    featureMap[refName] += line + '\n';
+                }
+            }
+            if (i++ % 10000 === 0) {
+                statusCallback(`Loading ${Math.floor(blockStart / 1000000).toLocaleString('en-US')}/${Math.floor(buffer.length / 1000000).toLocaleString('en-US')} MB`);
             }
-            intervalTree[key].insert([obj.get('start'), obj.get('end')], obj);
+            blockStart = n + 1;
         }
-        return { header, intervalTree };
+        const intervalTreeMap = Object.fromEntries(Object.entries(featureMap).map(([refName, lines]) => {
+            return [
+                refName,
+                (sc) => {
+                    sc === null || sc === void 0 ? void 0 : sc(`Parsing GFF data`);
+                    if (!this.calculatedIntervalTreeMap[refName]) {
+                        const intervalTree = new IntervalTree();
+                        gff
+                            .parseStringSync(lines, {
+                            parseFeatures: true,
+                            parseComments: false,
+                            parseDirectives: false,
+                            parseSequences: false,
+                            disableDerivesFromReferences: true,
+                        })
+                            .flat()
+                            .map((f, i) => new SimpleFeature({
+                            data: this.featureData(f),
+                            id: `${this.id}-${refName}-${i}`,
+                        }))
+                            .forEach(obj => intervalTree.insert([obj.get('start'), obj.get('end')], obj));
+                        this.calculatedIntervalTreeMap[refName] = intervalTree;
+                    }
+                    return this.calculatedIntervalTreeMap[refName];
+                },
+            ];
+        }));
+        return { header: headerLines.join('\n'), intervalTreeMap };
     }
-    async loadData() {
+    async loadData(opts) {
         if (!this.gffFeatures) {
-            this.gffFeatures = this.loadDataP().catch(e => {
+            this.gffFeatures = this.loadDataP(opts).catch(e => {
                 this.gffFeatures = undefined;
                 throw e;
             });
         }
         return this.gffFeatures;
     }
-    async getRefNames(_opts = {}) {
-        const { intervalTree } = await this.loadData();
-        return Object.keys(intervalTree);
+    async getRefNames(opts = {}) {
+        const { intervalTreeMap } = await this.loadData(opts);
+        return Object.keys(intervalTreeMap);
     }
-    async getHeader() {
-        const { header } = await this.loadData();
+    async getHeader(opts = {}) {
+        const { header } = await this.loadData(opts);
         return header;
     }
     getFeatures(query, opts = {}) {
@@ -66,8 +100,8 @@ export default class extends BaseFeatureDataAdapter {
             var _a;
             try {
                 const { start, end, refName } = query;
-                const { intervalTree } = await this.loadData();
-                (_a = intervalTree[refName]) === null || _a === void 0 ? void 0 : _a.search([start, end]).forEach(f => observer.next(f));
+                const { intervalTreeMap } = await this.loadData(opts);
+                (_a = intervalTreeMap[refName](opts.statusCallback)) === null || _a === void 0 ? void 0 : _a.search([start, end]).forEach(f => observer.next(f));
                 observer.complete();
             }
             catch (e) {

package/esm/Gff3Adapter/index.d.ts

@@ -1,3 +1,2 @@
 import PluginManager from '@jbrowse/core/PluginManager';
-declare const _default: (pluginManager: PluginManager) => void;
-export default _default;
+export default function Gff3AdapterF(pluginManager: PluginManager): void;

package/esm/Gff3Adapter/index.js

@@ -1,10 +1,10 @@
 import { AdapterType } from '@jbrowse/core/pluggableElementTypes';
 import configSchema from './configSchema';
-export default (pluginManager) => {
+export default function Gff3AdapterF(pluginManager) {
     pluginManager.addAdapterType(() => new AdapterType({
         name: 'Gff3Adapter',
         displayName: 'GFF3 adapter',
         configSchema,
         getAdapterClass: () => import('./Gff3Adapter').then(r => r.default),
     }));
-};
+}

package/esm/Gff3TabixAdapter/Gff3TabixAdapter.d.ts

@@ -5,7 +5,7 @@ import { TabixIndexedFile } from '@gmod/tabix';
 import { AnyConfigurationModel } from '@jbrowse/core/configuration';
 import PluginManager from '@jbrowse/core/PluginManager';
 import { getSubAdapterType } from '@jbrowse/core/data_adapters/dataAdapterCache';
-export default class extends BaseFeatureDataAdapter {
+export default class Gff3TabixAdapter extends BaseFeatureDataAdapter {
     protected gff: TabixIndexedFile;
     protected dontRedispatch: string[];
     constructor(config: AnyConfigurationModel, getSubAdapter?: getSubAdapterType, pluginManager?: PluginManager);

package/esm/Gff3TabixAdapter/Gff3TabixAdapter.js

@@ -7,7 +7,7 @@ import SimpleFeature from '@jbrowse/core/util/simpleFeature';
 import { TabixIndexedFile } from '@gmod/tabix';
 import gff from '@gmod/gff';
 import { readConfObject, } from '@jbrowse/core/configuration';
-export default class extends BaseFeatureDataAdapter {
+export default class Gff3TabixAdapter extends BaseFeatureDataAdapter {
     constructor(config, getSubAdapter, pluginManager) {
         super(config, getSubAdapter, pluginManager);
         const gffGzLocation = readConfObject(config, 'gffGzLocation');

package/esm/Gff3TabixAdapter/index.d.ts

@@ -1,3 +1,2 @@
 import PluginManager from '@jbrowse/core/PluginManager';
-declare const _default: (pluginManager: PluginManager) => void;
-export default _default;
+export default function Gff3TabixAdapterF(pluginManager: PluginManager): void;

package/esm/Gff3TabixAdapter/index.js

@@ -1,10 +1,10 @@
 import { AdapterType } from '@jbrowse/core/pluggableElementTypes';
 import configSchema from './configSchema';
-export default (pluginManager) => {
+export default function Gff3TabixAdapterF(pluginManager) {
     pluginManager.addAdapterType(() => new AdapterType({
         name: 'Gff3TabixAdapter',
         displayName: 'GFF3 tabix adapter',
         configSchema,
         getAdapterClass: () => import('./Gff3TabixAdapter').then(r => r.default),
     }));
-};
+}

package/esm/GuessGff3/index.d.ts

@@ -1,3 +1,2 @@
 import PluginManager from '@jbrowse/core/PluginManager';
-declare const _default: (pluginManager: PluginManager) => void;
-export default _default;
+export default function GuessGff3F(pluginManager: PluginManager): void;

package/esm/GuessGff3/index.js

@@ -1,5 +1,5 @@
 import { makeIndex, makeIndexType, getFileName, } from '@jbrowse/core/util/tracks';
-export default (pluginManager) => {
+export default function GuessGff3F(pluginManager) {
     pluginManager.addToExtensionPoint('Core-guessAdapterForLocation', (adapterGuesser) => {
         return (file, index, adapterHint) => {
             const regexGuess = /\.gff3?\.b?gz$/i;
@@ -38,4 +38,4 @@ export default (pluginManager) => {
             return adapterGuesser(file, index, adapterHint);
         };
     });
-};
+}

package/esm/index.d.ts

@@ -1,6 +1,6 @@
 import PluginManager from '@jbrowse/core/PluginManager';
 import Plugin from '@jbrowse/core/Plugin';
-export default class extends Plugin {
+export default class GFF3Plugin extends Plugin {
     name: string;
     install(pluginManager: PluginManager): void;
 }

package/esm/index.js

@@ -2,7 +2,7 @@ import Plugin from '@jbrowse/core/Plugin';
 import Gff3TabixAdapterF from './Gff3TabixAdapter';
 import Gff3AdapterF from './Gff3Adapter';
 import GuessGff3F from './GuessGff3';
-export default class extends Plugin {
+export default class GFF3Plugin extends Plugin {
     constructor() {
         super(...arguments);
         this.name = 'GFF3Plugin';

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-gff3",
-  "version": "2.11.0",
+  "version": "2.11.2",
   "description": "JBrowse 2 gff3.",
   "keywords": [
     "jbrowse",
@@ -55,5 +55,5 @@
   "distModule": "esm/index.js",
   "srcModule": "src/index.ts",
   "module": "esm/index.js",
-  "gitHead": "3d43a820b9274a6160aa4dc15616147f390d9094"
+  "gitHead": "511048cb6965f0bf624c96de244e7fd47fce17d6"
 }