@jbrowse/plugin-gff3 3.6.5 → 3.7.0

package/dist/Gff3Adapter/Gff3Adapter.d.ts

@@ -1,14 +1,14 @@
-import IntervalTree from '@flatten-js/interval-tree';
+import { IntervalTree } from '@flatten-js/interval-tree';
 import { BaseFeatureDataAdapter } from '@jbrowse/core/data_adapters/BaseAdapter';
 import type { BaseOptions } from '@jbrowse/core/data_adapters/BaseAdapter';
 import type { Feature } from '@jbrowse/core/util/simpleFeature';
 import type { NoAssemblyRegion } from '@jbrowse/core/util/types';
 type StatusCallback = (arg: string) => void;
 export default class Gff3Adapter extends BaseFeatureDataAdapter {
-    calculatedIntervalTreeMap: Record<string, IntervalTree>;
+    calculatedIntervalTreeMap: Record<string, IntervalTree<Feature>>;
     gffFeatures?: Promise<{
         header: string;
-        intervalTreeMap: Record<string, (sc?: StatusCallback) => IntervalTree>;
+        intervalTreeMap: Record<string, (sc?: StatusCallback) => IntervalTree<Feature>>;
     }>;
     private loadDataP;
     private loadData;

package/dist/Gff3Adapter/Gff3Adapter.js

@@ -3,7 +3,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-const interval_tree_1 = __importDefault(require("@flatten-js/interval-tree"));
+const interval_tree_1 = require("@flatten-js/interval-tree");
 const BaseAdapter_1 = require("@jbrowse/core/data_adapters/BaseAdapter");
 const util_1 = require("@jbrowse/core/util");
 const io_1 = require("@jbrowse/core/util/io");
@@ -26,7 +26,7 @@ class Gff3Adapter extends BaseAdapter_1.BaseFeatureDataAdapter {
             (sc) => {
                 if (!this.calculatedIntervalTreeMap[refName]) {
                     sc === null || sc === void 0 ? void 0 : sc('Parsing GFF data');
-                    const intervalTree = new interval_tree_1.default();
+                    const intervalTree = new interval_tree_1.IntervalTree();
                     for (const obj of (0, gff_nostream_1.parseStringSync)(lines)
                         .flat()
                         .map((f, i) => new simpleFeature_1.default({

package/esm/Gff3Adapter/Gff3Adapter.d.ts

@@ -1,14 +1,14 @@
-import IntervalTree from '@flatten-js/interval-tree';
+import { IntervalTree } from '@flatten-js/interval-tree';
 import { BaseFeatureDataAdapter } from '@jbrowse/core/data_adapters/BaseAdapter';
 import type { BaseOptions } from '@jbrowse/core/data_adapters/BaseAdapter';
 import type { Feature } from '@jbrowse/core/util/simpleFeature';
 import type { NoAssemblyRegion } from '@jbrowse/core/util/types';
 type StatusCallback = (arg: string) => void;
 export default class Gff3Adapter extends BaseFeatureDataAdapter {
-    calculatedIntervalTreeMap: Record<string, IntervalTree>;
+    calculatedIntervalTreeMap: Record<string, IntervalTree<Feature>>;
     gffFeatures?: Promise<{
         header: string;
-        intervalTreeMap: Record<string, (sc?: StatusCallback) => IntervalTree>;
+        intervalTreeMap: Record<string, (sc?: StatusCallback) => IntervalTree<Feature>>;
     }>;
     private loadDataP;
     private loadData;

package/esm/Gff3Adapter/Gff3Adapter.js

@@ -1,4 +1,4 @@
-import IntervalTree from '@flatten-js/interval-tree';
+import { IntervalTree } from '@flatten-js/interval-tree';
 import { BaseFeatureDataAdapter } from '@jbrowse/core/data_adapters/BaseAdapter';
 import { fetchAndMaybeUnzip } from '@jbrowse/core/util';
 import { openLocation } from '@jbrowse/core/util/io';

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-gff3",
-  "version": "3.6.5",
+  "version": "3.7.0",
   "description": "JBrowse 2 gff3.",
   "keywords": [
     "jbrowse",
@@ -36,11 +36,11 @@
     "clean": "rimraf dist esm *.tsbuildinfo"
   },
   "dependencies": {
-    "@flatten-js/interval-tree": "^1.0.15",
+    "@flatten-js/interval-tree": "^2.0.0",
     "@gmod/bgzf-filehandle": "^4.0.0",
     "@gmod/tabix": "^3.0.1",
-    "@jbrowse/core": "^3.6.5",
-    "@jbrowse/plugin-linear-genome-view": "^3.6.5",
+    "@jbrowse/core": "^3.7.0",
+    "@jbrowse/plugin-linear-genome-view": "^3.7.0",
     "@mui/material": "^7.0.0",
     "gff-nostream": "^1.3.3",
     "mobx": "^6.0.0",
@@ -53,5 +53,5 @@
   "distModule": "esm/index.js",
   "srcModule": "src/index.ts",
   "module": "esm/index.js",
-  "gitHead": "354d0a87b757b4d84f824b47507662f6f3a1693f"
+  "gitHead": "85bdd0d58286b7adbfd408146b15847676317635"
 }