@gmod/bam 1.1.8 → 1.1.9

package/dist/bamFile.js.map

@@ -0,0 +1 @@
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package/dist/chunk.js

@@ -1,73 +1,38 @@
 "use strict";
-
-var _interopRequireDefault = require("@babel/runtime-corejs3/helpers/interopRequireDefault");
-
-var _Object$defineProperty = require("@babel/runtime-corejs3/core-js-stable/object/define-property");
-
-_Object$defineProperty(exports, "__esModule", {
-  value: true
-});
-
-exports.default = void 0;
-
-var _concat = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/concat"));
-
-var _classCallCheck2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/classCallCheck"));
-
-var _createClass2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/createClass"));
-
-var _defineProperty2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/defineProperty"));
-
+Object.defineProperty(exports, "__esModule", { value: true });
 // little class representing a chunk in the index
-var Chunk = /*#__PURE__*/function () {
-  /**
-   * @param {VirtualOffset} minv
-   * @param {VirtualOffset} maxv
-   * @param {number} bin
-   * @param {number} [fetchedSize]
-   */
-  function Chunk(minv, maxv, bin) {
-    var fetchedSize = arguments.length > 3 && arguments[3] !== undefined ? arguments[3] : undefined;
-    (0, _classCallCheck2.default)(this, Chunk);
-    (0, _defineProperty2.default)(this, "minv", void 0);
-    (0, _defineProperty2.default)(this, "maxv", void 0);
-    (0, _defineProperty2.default)(this, "bin", void 0);
-    (0, _defineProperty2.default)(this, "_fetchedSize", void 0);
-    this.minv = minv;
-    this.maxv = maxv;
-    this.bin = bin;
-    this._fetchedSize = fetchedSize;
-  }
-
-  (0, _createClass2.default)(Chunk, [{
-    key: "toUniqueString",
-    value: function toUniqueString() {
-      var _context, _context2, _context3;
-
-      return (0, _concat.default)(_context = (0, _concat.default)(_context2 = (0, _concat.default)(_context3 = "".concat(this.minv, "..")).call(_context3, this.maxv, " (bin ")).call(_context2, this.bin, ", fetchedSize ")).call(_context, this.fetchedSize(), ")");
+var Chunk = /** @class */ (function () {
+    /**
+     * @param {VirtualOffset} minv
+     * @param {VirtualOffset} maxv
+     * @param {number} bin
+     * @param {number} [fetchedSize]
+     */
+    function Chunk(minv, maxv, bin, fetchedSize) {
+        if (fetchedSize === void 0) { fetchedSize = undefined; }
+        this.minv = minv;
+        this.maxv = maxv;
+        this.bin = bin;
+        this._fetchedSize = fetchedSize;
     }
-  }, {
-    key: "toString",
-    value: function toString() {
-      return this.toUniqueString();
-    }
-  }, {
-    key: "compareTo",
-    value: function compareTo(b) {
-      return this.minv.compareTo(b.minv) || this.maxv.compareTo(b.maxv) || this.bin - b.bin;
-    }
-  }, {
-    key: "fetchedSize",
-    value: function fetchedSize() {
-      if (this._fetchedSize !== undefined) {
-        return this._fetchedSize;
-      }
-
-      return this.maxv.blockPosition + (1 << 16) - this.minv.blockPosition;
-    }
-  }]);
-  return Chunk;
-}();
-
+    Chunk.prototype.toUniqueString = function () {
+        return "".concat(this.minv, "..").concat(this.maxv, " (bin ").concat(this.bin, ", fetchedSize ").concat(this.fetchedSize(), ")");
+    };
+    Chunk.prototype.toString = function () {
+        return this.toUniqueString();
+    };
+    Chunk.prototype.compareTo = function (b) {
+        return (this.minv.compareTo(b.minv) ||
+            this.maxv.compareTo(b.maxv) ||
+            this.bin - b.bin);
+    };
+    Chunk.prototype.fetchedSize = function () {
+        if (this._fetchedSize !== undefined) {
+            return this._fetchedSize;
+        }
+        return this.maxv.blockPosition + (1 << 16) - this.minv.blockPosition;
+    };
+    return Chunk;
+}());
 exports.default = Chunk;
-//# sourceMappingURL=data:application/json;charset=utf-8;base64,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
+//# sourceMappingURL=chunk.js.map

package/dist/chunk.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"chunk.js","sourceRoot":"","sources":["../src/chunk.ts"],"names":[],"mappings":";;AAEA,iDAAiD;AACjD;IAME;;;;;OAKG;IACH,eACE,IAAmB,EACnB,IAAmB,EACnB,GAAW,EACX,WAAuB;QAAvB,4BAAA,EAAA,uBAAuB;QAEvB,IAAI,CAAC,IAAI,GAAG,IAAI,CAAA;QAChB,IAAI,CAAC,IAAI,GAAG,IAAI,CAAA;QAChB,IAAI,CAAC,GAAG,GAAG,GAAG,CAAA;QACd,IAAI,CAAC,YAAY,GAAG,WAAW,CAAA;IACjC,CAAC;IAED,8BAAc,GAAd;QACE,OAAO,UAAG,IAAI,CAAC,IAAI,eAAK,IAAI,CAAC,IAAI,mBAC/B,IAAI,CAAC,GAAG,2BACO,IAAI,CAAC,WAAW,EAAE,MAAG,CAAA;IACxC,CAAC;IAED,wBAAQ,GAAR;QACE,OAAO,IAAI,CAAC,cAAc,EAAE,CAAA;IAC9B,CAAC;IAED,yBAAS,GAAT,UAAU,CAAQ;QAChB,OAAO,CACL,IAAI,CAAC,IAAI,CAAC,SAAS,CAAC,CAAC,CAAC,IAAI,CAAC;YAC3B,IAAI,CAAC,IAAI,CAAC,SAAS,CAAC,CAAC,CAAC,IAAI,CAAC;YAC3B,IAAI,CAAC,GAAG,GAAG,CAAC,CAAC,GAAG,CACjB,CAAA;IACH,CAAC;IAED,2BAAW,GAAX;QACE,IAAI,IAAI,CAAC,YAAY,KAAK,SAAS,EAAE;YACnC,OAAO,IAAI,CAAC,YAAY,CAAA;SACzB;QACD,OAAO,IAAI,CAAC,IAAI,CAAC,aAAa,GAAG,CAAC,CAAC,IAAI,EAAE,CAAC,GAAG,IAAI,CAAC,IAAI,CAAC,aAAa,CAAA;IACtE,CAAC;IACH,YAAC;AAAD,CAAC,AAhDD,IAgDC"}

package/dist/constants.js

@@ -1,37 +1,29 @@
 "use strict";
-
-var _Object$defineProperty = require("@babel/runtime-corejs3/core-js-stable/object/define-property");
-
-_Object$defineProperty(exports, "__esModule", {
-  value: true
-});
-
-exports.default = void 0;
-var _default = {
-  //  the read is paired in sequencing, no matter whether it is mapped in a pair
-  BAM_FPAIRED: 1,
-  //  the read is mapped in a proper pair
-  BAM_FPROPER_PAIR: 2,
-  //  the read itself is unmapped; conflictive with BAM_FPROPER_PAIR
-  BAM_FUNMAP: 4,
-  //  the mate is unmapped
-  BAM_FMUNMAP: 8,
-  //  the read is mapped to the reverse strand
-  BAM_FREVERSE: 16,
-  //  the mate is mapped to the reverse strand
-  BAM_FMREVERSE: 32,
-  //  this is read1
-  BAM_FREAD1: 64,
-  //  this is read2
-  BAM_FREAD2: 128,
-  //  not primary alignment
-  BAM_FSECONDARY: 256,
-  //  QC failure
-  BAM_FQCFAIL: 512,
-  //  optical or PCR duplicate
-  BAM_FDUP: 1024,
-  //  supplementary alignment
-  BAM_FSUPPLEMENTARY: 2048
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.default = {
+    //  the read is paired in sequencing, no matter whether it is mapped in a pair
+    BAM_FPAIRED: 1,
+    //  the read is mapped in a proper pair
+    BAM_FPROPER_PAIR: 2,
+    //  the read itself is unmapped; conflictive with BAM_FPROPER_PAIR
+    BAM_FUNMAP: 4,
+    //  the mate is unmapped
+    BAM_FMUNMAP: 8,
+    //  the read is mapped to the reverse strand
+    BAM_FREVERSE: 16,
+    //  the mate is mapped to the reverse strand
+    BAM_FMREVERSE: 32,
+    //  this is read1
+    BAM_FREAD1: 64,
+    //  this is read2
+    BAM_FREAD2: 128,
+    //  not primary alignment
+    BAM_FSECONDARY: 256,
+    //  QC failure
+    BAM_FQCFAIL: 512,
+    //  optical or PCR duplicate
+    BAM_FDUP: 1024,
+    //  supplementary alignment
+    BAM_FSUPPLEMENTARY: 2048,
 };
-exports.default = _default;
-//# sourceMappingURL=data:application/json;charset=utf-8;base64,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
+//# sourceMappingURL=constants.js.map

package/dist/constants.js.map

@@ -0,0 +1 @@
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