@gmod/bam 1.1.16 → 1.1.18

package/dist/indexFile.js

@@ -8,46 +8,18 @@ var __awaiter = (this && this.__awaiter) || function (thisArg, _arguments, P, ge
         step((generator = generator.apply(thisArg, _arguments || [])).next());
     });
 };
-var __generator = (this && this.__generator) || function (thisArg, body) {
-    var _ = { label: 0, sent: function() { if (t[0] & 1) throw t[1]; return t[1]; }, trys: [], ops: [] }, f, y, t, g;
-    return g = { next: verb(0), "throw": verb(1), "return": verb(2) }, typeof Symbol === "function" && (g[Symbol.iterator] = function() { return this; }), g;
-    function verb(n) { return function (v) { return step([n, v]); }; }
-    function step(op) {
-        if (f) throw new TypeError("Generator is already executing.");
-        while (_) try {
-            if (f = 1, y && (t = op[0] & 2 ? y["return"] : op[0] ? y["throw"] || ((t = y["return"]) && t.call(y), 0) : y.next) && !(t = t.call(y, op[1])).done) return t;
-            if (y = 0, t) op = [op[0] & 2, t.value];
-            switch (op[0]) {
-                case 0: case 1: t = op; break;
-                case 4: _.label++; return { value: op[1], done: false };
-                case 5: _.label++; y = op[1]; op = [0]; continue;
-                case 7: op = _.ops.pop(); _.trys.pop(); continue;
-                default:
-                    if (!(t = _.trys, t = t.length > 0 && t[t.length - 1]) && (op[0] === 6 || op[0] === 2)) { _ = 0; continue; }
-                    if (op[0] === 3 && (!t || (op[1] > t[0] && op[1] < t[3]))) { _.label = op[1]; break; }
-                    if (op[0] === 6 && _.label < t[1]) { _.label = t[1]; t = op; break; }
-                    if (t && _.label < t[2]) { _.label = t[2]; _.ops.push(op); break; }
-                    if (t[2]) _.ops.pop();
-                    _.trys.pop(); continue;
-            }
-            op = body.call(thisArg, _);
-        } catch (e) { op = [6, e]; y = 0; } finally { f = t = 0; }
-        if (op[0] & 5) throw op[1]; return { value: op[0] ? op[1] : void 0, done: true };
-    }
-};
 Object.defineProperty(exports, "__esModule", { value: true });
-var IndexFile = /** @class */ (function () {
+class IndexFile {
     /**
      * @param {filehandle} filehandle
      * @param {function} [renameRefSeqs]
      */
-    function IndexFile(_a) {
-        var filehandle = _a.filehandle, _b = _a.renameRefSeq, renameRefSeq = _b === void 0 ? function (n) { return n; } : _b;
+    constructor({ filehandle, renameRefSeq = (n) => n, }) {
         this.filehandle = filehandle;
         this.renameRefSeq = renameRefSeq;
     }
-    IndexFile.prototype._findFirstData = function (data, virtualOffset) {
-        var currentFdl = data.firstDataLine;
+    _findFirstData(data, virtualOffset) {
+        const currentFdl = data.firstDataLine;
         if (currentFdl) {
             data.firstDataLine =
                 currentFdl.compareTo(virtualOffset) > 0 ? virtualOffset : currentFdl;
@@ -55,34 +27,23 @@ var IndexFile = /** @class */ (function () {
         else {
             data.firstDataLine = virtualOffset;
         }
-    };
-    IndexFile.prototype.parse = function (opts) {
-        if (opts === void 0) { opts = {}; }
-        return __awaiter(this, void 0, void 0, function () {
-            var _this = this;
-            return __generator(this, function (_a) {
-                if (!this.setupP) {
-                    this.setupP = this._parse(opts).catch(function (e) {
-                        _this.setupP = undefined;
-                        throw e;
-                    });
-                }
-                return [2 /*return*/, this.setupP];
-            });
+    }
+    parse(opts = {}) {
+        return __awaiter(this, void 0, void 0, function* () {
+            if (!this.setupP) {
+                this.setupP = this._parse(opts).catch(e => {
+                    this.setupP = undefined;
+                    throw e;
+                });
+            }
+            return this.setupP;
         });
-    };
-    IndexFile.prototype.hasRefSeq = function (seqId, opts) {
-        if (opts === void 0) { opts = {}; }
-        return __awaiter(this, void 0, void 0, function () {
-            return __generator(this, function (_a) {
-                switch (_a.label) {
-                    case 0: return [4 /*yield*/, this.parse(opts)];
-                    case 1: return [2 /*return*/, !!((_a.sent()).indices[seqId] || {}).binIndex];
-                }
-            });
+    }
+    hasRefSeq(seqId, opts = {}) {
+        return __awaiter(this, void 0, void 0, function* () {
+            return !!((yield this.parse(opts)).indices[seqId] || {}).binIndex;
         });
-    };
-    return IndexFile;
-}());
+    }
+}
 exports.default = IndexFile;
 //# sourceMappingURL=indexFile.js.map

package/dist/indexFile.js.map

@@ -1 +1 @@
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+{"version":3,"file":"indexFile.js","sourceRoot":"","sources":["../src/indexFile.ts"],"names":[],"mappings":";;;;;;;;;;;AAKA,MAA8B,SAAS;IAKrC;;;OAGG;IACH,YAAY,EACV,UAAU,EACV,YAAY,GAAG,CAAC,CAAS,EAAE,EAAE,CAAC,CAAC,GAIhC;QACC,IAAI,CAAC,UAAU,GAAG,UAAU,CAAA;QAC5B,IAAI,CAAC,YAAY,GAAG,YAAY,CAAA;IAClC,CAAC;IAgBD,cAAc,CAAC,IAAS,EAAE,aAA4B;QACpD,MAAM,UAAU,GAAG,IAAI,CAAC,aAAa,CAAA;QACrC,IAAI,UAAU,EAAE;YACd,IAAI,CAAC,aAAa;gBAChB,UAAU,CAAC,SAAS,CAAC,aAAa,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,aAAa,CAAC,CAAC,CAAC,UAAU,CAAA;SACvE;aAAM;YACL,IAAI,CAAC,aAAa,GAAG,aAAa,CAAA;SACnC;IACH,CAAC;IAEK,KAAK,CAAC,OAAiB,EAAE;;YAC7B,IAAI,CAAC,IAAI,CAAC,MAAM,EAAE;gBAChB,IAAI,CAAC,MAAM,GAAG,IAAI,CAAC,MAAM,CAAC,IAAI,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE;oBACxC,IAAI,CAAC,MAAM,GAAG,SAAS,CAAA;oBACvB,MAAM,CAAC,CAAA;gBACT,CAAC,CAAC,CAAA;aACH;YACD,OAAO,IAAI,CAAC,MAAM,CAAA;QACpB,CAAC;KAAA;IAEK,SAAS,CAAC,KAAa,EAAE,OAAiB,EAAE;;YAChD,OAAO,CAAC,CAAC,CAAC,CAAC,MAAM,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC,CAAC,OAAO,CAAC,KAAK,CAAC,IAAI,EAAE,CAAC,CAAC,QAAQ,CAAA;QACnE,CAAC;KAAA;CACF;AAzDD,4BAyDC"}