@jbrowse/plugin-comparative-adapters 2.15.3 → 2.15.4

package/dist/ChainAdapter/ChainAdapter.js

@@ -6,6 +6,7 @@ Object.defineProperty(exports, "__esModule", { value: true });
 const io_1 = require("@jbrowse/core/util/io");
 const util_1 = require("@jbrowse/core/util");
 const bgzf_filehandle_1 = require("@gmod/bgzf-filehandle");
+// locals
 const PAFAdapter_1 = __importDefault(require("../PAFAdapter/PAFAdapter"));
 const util_2 = require("./util");
 class ChainAdapter extends PAFAdapter_1.default {

package/dist/ChainAdapter/util.d.ts

@@ -1,3 +1,4 @@
+import type { Buffer } from 'buffer';
 export declare function paf_chain2paf(buffer: Buffer): {
     qname: string;
     qstart: number;

package/dist/DeltaAdapter/DeltaAdapter.js

@@ -5,15 +5,16 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
 Object.defineProperty(exports, "__esModule", { value: true });
 const io_1 = require("@jbrowse/core/util/io");
 const bgzf_filehandle_1 = require("@gmod/bgzf-filehandle");
+const util_1 = require("@jbrowse/core/util");
+// locals
 const PAFAdapter_1 = __importDefault(require("../PAFAdapter/PAFAdapter"));
-const util_1 = require("./util");
-const util_2 = require("@jbrowse/core/util");
+const util_2 = require("./util");
 class DeltaAdapter extends PAFAdapter_1.default {
     async setupPre(opts) {
         const loc = (0, io_1.openLocation)(this.getConf('deltaLocation'), this.pluginManager);
         const buffer = (await loc.readFile(opts));
-        const buf = (0, util_2.isGzip)(buffer) ? await (0, bgzf_filehandle_1.unzip)(buffer) : buffer;
-        return (0, util_1.paf_delta2paf)(buf);
+        const buf = (0, util_1.isGzip)(buffer) ? await (0, bgzf_filehandle_1.unzip)(buffer) : buffer;
+        return (0, util_2.paf_delta2paf)(buf);
     }
 }
 exports.default = DeltaAdapter;

package/dist/DeltaAdapter/util.d.ts

@@ -1,3 +1,4 @@
+import type { Buffer } from 'buffer';
 export declare function paf_delta2paf(buffer: Buffer): {
     qname: string;
     qstart: number;

package/dist/util.d.ts

@@ -1,5 +1,6 @@
 import { BaseOptions } from '@jbrowse/core/data_adapters/BaseAdapter';
 import { GenericFilehandle } from 'generic-filehandle';
+import type { Buffer } from 'buffer';
 import { PAFRecord } from './PAFAdapter/util';
 export declare function parseBed(text: string): Map<string | undefined, {
     refName: string | undefined;

package/esm/ChainAdapter/ChainAdapter.js

@@ -1,6 +1,7 @@
 import { openLocation } from '@jbrowse/core/util/io';
 import { isGzip } from '@jbrowse/core/util';
 import { unzip } from '@gmod/bgzf-filehandle';
+// locals
 import PAFAdapter from '../PAFAdapter/PAFAdapter';
 import { paf_chain2paf } from './util';
 export default class ChainAdapter extends PAFAdapter {

package/esm/ChainAdapter/util.d.ts

@@ -1,3 +1,4 @@
+import type { Buffer } from 'buffer';
 export declare function paf_chain2paf(buffer: Buffer): {
     qname: string;
     qstart: number;

package/esm/DeltaAdapter/DeltaAdapter.js

@@ -1,8 +1,9 @@
 import { openLocation } from '@jbrowse/core/util/io';
 import { unzip } from '@gmod/bgzf-filehandle';
+import { isGzip } from '@jbrowse/core/util';
+// locals
 import PAFAdapter from '../PAFAdapter/PAFAdapter';
 import { paf_delta2paf } from './util';
-import { isGzip } from '@jbrowse/core/util';
 export default class DeltaAdapter extends PAFAdapter {
     async setupPre(opts) {
         const loc = openLocation(this.getConf('deltaLocation'), this.pluginManager);

package/esm/DeltaAdapter/util.d.ts

@@ -1,3 +1,4 @@
+import type { Buffer } from 'buffer';
 export declare function paf_delta2paf(buffer: Buffer): {
     qname: string;
     qstart: number;

package/esm/util.d.ts

@@ -1,5 +1,6 @@
 import { BaseOptions } from '@jbrowse/core/data_adapters/BaseAdapter';
 import { GenericFilehandle } from 'generic-filehandle';
+import type { Buffer } from 'buffer';
 import { PAFRecord } from './PAFAdapter/util';
 export declare function parseBed(text: string): Map<string | undefined, {
     refName: string | undefined;

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-comparative-adapters",
-  "version": "2.15.3",
+  "version": "2.15.4",
   "description": "JBrowse 2 comparative adapters",
   "keywords": [
     "jbrowse",
@@ -58,5 +58,5 @@
   "publishConfig": {
     "access": "public"
   },
-  "gitHead": "c0f82fe7b210622dd462e702641cc6da01109c6e"
+  "gitHead": "686b4ad9016b3586e8230180f7adb44c238ba4fb"
 }