Comparing version 1.1.8 to 1.1.9
@@ -0,1 +1,9 @@ | ||
<a name="1.1.9"></a> | ||
## [1.1.9](https://github.com/GMOD/bam-js/compare/v1.1.8...v1.1.9) (2021-12-14) | ||
- Add ESM module export in package.json (smaller bundle size for consumers) | ||
- Cache BAI readFile result for compatibility with node.js native filehandles (which otherwise fail if re-reading the filehandle twice) | ||
<a name="1.1.8"></a> | ||
@@ -2,0 +10,0 @@ ## [1.1.8](https://github.com/GMOD/bam-js/compare/v1.1.7...v1.1.8) (2021-05-21) |
@@ -6,2 +6,3 @@ /// <reference types="node" /> | ||
export default class BAI extends IndexFile { | ||
baiP?: Promise<Buffer>; | ||
parsePseudoBin(bytes: Buffer, offset: number): { | ||
@@ -11,2 +12,3 @@ lineCount: number; | ||
lineCount(refId: number, opts?: BaseOpts): Promise<any>; | ||
fetchBai(opts?: BaseOpts): Promise<Buffer>; | ||
_parse(opts?: BaseOpts): Promise<{ | ||
@@ -13,0 +15,0 @@ [key: string]: any; |
848
dist/bai.js
"use strict"; | ||
var _interopRequireDefault = require("@babel/runtime-corejs3/helpers/interopRequireDefault"); | ||
var _Object$defineProperty2 = require("@babel/runtime-corejs3/core-js-stable/object/define-property"); | ||
_Object$defineProperty2(exports, "__esModule", { | ||
value: true | ||
}); | ||
exports.default = void 0; | ||
var _getIterator2 = _interopRequireDefault(require("@babel/runtime-corejs3/core-js/get-iterator")); | ||
var _isArray = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/array/is-array")); | ||
var _getIteratorMethod2 = _interopRequireDefault(require("@babel/runtime-corejs3/core-js/get-iterator-method")); | ||
var _symbol = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/symbol")); | ||
var _from = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/array/from")); | ||
var _defineProperty2 = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/object/define-property")); | ||
var _defineProperties = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/object/define-properties")); | ||
var _getOwnPropertyDescriptors = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/object/get-own-property-descriptors")); | ||
var _forEach = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/for-each")); | ||
var _getOwnPropertyDescriptor = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/object/get-own-property-descriptor")); | ||
var _filter = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/filter")); | ||
var _getOwnPropertySymbols = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/object/get-own-property-symbols")); | ||
var _keys = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/object/keys")); | ||
var _construct = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/reflect/construct")); | ||
var _slicedToArray2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/slicedToArray")); | ||
var _defineProperty3 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/defineProperty")); | ||
var _map = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/map")); | ||
var _regenerator = _interopRequireDefault(require("@babel/runtime-corejs3/regenerator")); | ||
var _asyncToGenerator2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/asyncToGenerator")); | ||
var _slice = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/slice")); | ||
var _classCallCheck2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/classCallCheck")); | ||
var _createClass2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/createClass")); | ||
var _inherits2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/inherits")); | ||
var _possibleConstructorReturn2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/possibleConstructorReturn")); | ||
var _getPrototypeOf2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/getPrototypeOf")); | ||
var _long = _interopRequireDefault(require("long")); | ||
var _virtualOffset = require("./virtualOffset"); | ||
var _chunk = _interopRequireDefault(require("./chunk")); | ||
var _indexFile = _interopRequireDefault(require("./indexFile")); | ||
var _util = require("./util"); | ||
function _createForOfIteratorHelper(o, allowArrayLike) { var it; if (typeof _symbol.default === "undefined" || (0, _getIteratorMethod2.default)(o) == null) { if ((0, _isArray.default)(o) || (it = _unsupportedIterableToArray(o)) || allowArrayLike && o && typeof o.length === "number") { if (it) o = it; var i = 0; var F = function F() {}; return { s: F, n: function n() { if (i >= o.length) return { done: true }; return { done: false, value: o[i++] }; }, e: function e(_e) { throw _e; }, f: F }; } throw new TypeError("Invalid attempt to iterate non-iterable instance.\nIn order to be iterable, non-array objects must have a [Symbol.iterator]() method."); } var normalCompletion = true, didErr = false, err; return { s: function s() { it = (0, _getIterator2.default)(o); }, n: function n() { var step = it.next(); normalCompletion = step.done; return step; }, e: function e(_e2) { didErr = true; err = _e2; }, f: function f() { try { if (!normalCompletion && it.return != null) it.return(); } finally { if (didErr) throw err; } } }; } | ||
function _unsupportedIterableToArray(o, minLen) { var _context7; if (!o) return; if (typeof o === "string") return _arrayLikeToArray(o, minLen); var n = (0, _slice.default)(_context7 = Object.prototype.toString.call(o)).call(_context7, 8, -1); if (n === "Object" && o.constructor) n = o.constructor.name; if (n === "Map" || n === "Set") return (0, _from.default)(o); if (n === "Arguments" || /^(?:Ui|I)nt(?:8|16|32)(?:Clamped)?Array$/.test(n)) return _arrayLikeToArray(o, minLen); } | ||
function _arrayLikeToArray(arr, len) { if (len == null || len > arr.length) len = arr.length; for (var i = 0, arr2 = new Array(len); i < len; i++) { arr2[i] = arr[i]; } return arr2; } | ||
function ownKeys(object, enumerableOnly) { var keys = (0, _keys.default)(object); if (_getOwnPropertySymbols.default) { var symbols = (0, _getOwnPropertySymbols.default)(object); if (enumerableOnly) symbols = (0, _filter.default)(symbols).call(symbols, function (sym) { return (0, _getOwnPropertyDescriptor.default)(object, sym).enumerable; }); keys.push.apply(keys, symbols); } return keys; } | ||
function _objectSpread(target) { for (var i = 1; i < arguments.length; i++) { var source = arguments[i] != null ? arguments[i] : {}; if (i % 2) { var _context5; (0, _forEach.default)(_context5 = ownKeys(Object(source), true)).call(_context5, function (key) { (0, _defineProperty3.default)(target, key, source[key]); }); } else if (_getOwnPropertyDescriptors.default) { (0, _defineProperties.default)(target, (0, _getOwnPropertyDescriptors.default)(source)); } else { var _context6; (0, _forEach.default)(_context6 = ownKeys(Object(source))).call(_context6, function (key) { (0, _defineProperty2.default)(target, key, (0, _getOwnPropertyDescriptor.default)(source, key)); }); } } return target; } | ||
function _createSuper(Derived) { var hasNativeReflectConstruct = _isNativeReflectConstruct(); return function _createSuperInternal() { var Super = (0, _getPrototypeOf2.default)(Derived), result; if (hasNativeReflectConstruct) { var NewTarget = (0, _getPrototypeOf2.default)(this).constructor; result = (0, _construct.default)(Super, arguments, NewTarget); } else { result = Super.apply(this, arguments); } return (0, _possibleConstructorReturn2.default)(this, result); }; } | ||
function _isNativeReflectConstruct() { if (typeof Reflect === "undefined" || !_construct.default) return false; if (_construct.default.sham) return false; if (typeof Proxy === "function") return true; try { Date.prototype.toString.call((0, _construct.default)(Date, [], function () {})); return true; } catch (e) { return false; } } | ||
var __extends = (this && this.__extends) || (function () { | ||
var extendStatics = function (d, b) { | ||
extendStatics = Object.setPrototypeOf || | ||
({ __proto__: [] } instanceof Array && function (d, b) { d.__proto__ = b; }) || | ||
function (d, b) { for (var p in b) if (Object.prototype.hasOwnProperty.call(b, p)) d[p] = b[p]; }; | ||
return extendStatics(d, b); | ||
}; | ||
return function (d, b) { | ||
if (typeof b !== "function" && b !== null) | ||
throw new TypeError("Class extends value " + String(b) + " is not a constructor or null"); | ||
extendStatics(d, b); | ||
function __() { this.constructor = d; } | ||
d.prototype = b === null ? Object.create(b) : (__.prototype = b.prototype, new __()); | ||
}; | ||
})(); | ||
var __assign = (this && this.__assign) || function () { | ||
__assign = Object.assign || function(t) { | ||
for (var s, i = 1, n = arguments.length; i < n; i++) { | ||
s = arguments[i]; | ||
for (var p in s) if (Object.prototype.hasOwnProperty.call(s, p)) | ||
t[p] = s[p]; | ||
} | ||
return t; | ||
}; | ||
return __assign.apply(this, arguments); | ||
}; | ||
var __awaiter = (this && this.__awaiter) || function (thisArg, _arguments, P, generator) { | ||
function adopt(value) { return value instanceof P ? value : new P(function (resolve) { resolve(value); }); } | ||
return new (P || (P = Promise))(function (resolve, reject) { | ||
function fulfilled(value) { try { step(generator.next(value)); } catch (e) { reject(e); } } | ||
function rejected(value) { try { step(generator["throw"](value)); } catch (e) { reject(e); } } | ||
function step(result) { result.done ? resolve(result.value) : adopt(result.value).then(fulfilled, rejected); } | ||
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 }; | ||
} | ||
}; | ||
var __importDefault = (this && this.__importDefault) || function (mod) { | ||
return (mod && mod.__esModule) ? mod : { "default": mod }; | ||
}; | ||
Object.defineProperty(exports, "__esModule", { value: true }); | ||
var long_1 = __importDefault(require("long")); | ||
var virtualOffset_1 = require("./virtualOffset"); | ||
var chunk_1 = __importDefault(require("./chunk")); | ||
var indexFile_1 = __importDefault(require("./indexFile")); | ||
var util_1 = require("./util"); | ||
var BAI_MAGIC = 21578050; // BAI\1 | ||
function roundDown(n, multiple) { | ||
return n - n % multiple; | ||
return n - (n % multiple); | ||
} | ||
function roundUp(n, multiple) { | ||
return n - n % multiple + multiple; | ||
return n - (n % multiple) + multiple; | ||
} | ||
var BAI = /*#__PURE__*/function (_IndexFile) { | ||
(0, _inherits2.default)(BAI, _IndexFile); | ||
var _super = _createSuper(BAI); | ||
function BAI() { | ||
(0, _classCallCheck2.default)(this, BAI); | ||
return _super.apply(this, arguments); | ||
} | ||
(0, _createClass2.default)(BAI, [{ | ||
key: "parsePseudoBin", | ||
value: function parsePseudoBin(bytes, offset) { | ||
var lineCount = (0, _util.longToNumber)(_long.default.fromBytesLE((0, _slice.default)(Array.prototype).call(bytes, offset + 16, offset + 24), true)); | ||
return { | ||
lineCount: lineCount | ||
}; | ||
var BAI = /** @class */ (function (_super) { | ||
__extends(BAI, _super); | ||
function BAI() { | ||
return _super !== null && _super.apply(this, arguments) || this; | ||
} | ||
}, { | ||
key: "lineCount", | ||
value: function () { | ||
var _lineCount = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee(refId) { | ||
var opts, | ||
prom, | ||
index, | ||
ret, | ||
_args = arguments; | ||
return _regenerator.default.wrap(function _callee$(_context) { | ||
while (1) { | ||
switch (_context.prev = _context.next) { | ||
case 0: | ||
opts = _args.length > 1 && _args[1] !== undefined ? _args[1] : {}; | ||
_context.next = 3; | ||
return this.parse(opts); | ||
case 3: | ||
prom = _context.sent; | ||
index = prom.indices[refId]; | ||
if (index) { | ||
_context.next = 7; | ||
break; | ||
BAI.prototype.parsePseudoBin = function (bytes, offset) { | ||
var lineCount = (0, util_1.longToNumber)(long_1.default.fromBytesLE(Array.prototype.slice.call(bytes, offset + 16, offset + 24), true)); | ||
return { lineCount: lineCount }; | ||
}; | ||
BAI.prototype.lineCount = function (refId, opts) { | ||
if (opts === void 0) { opts = {}; } | ||
return __awaiter(this, void 0, void 0, function () { | ||
var prom, index, ret; | ||
return __generator(this, function (_a) { | ||
switch (_a.label) { | ||
case 0: return [4 /*yield*/, this.parse(opts)]; | ||
case 1: | ||
prom = _a.sent(); | ||
index = prom.indices[refId]; | ||
if (!index) { | ||
return [2 /*return*/, -1]; | ||
} | ||
ret = index.stats || {}; | ||
return [2 /*return*/, ret.lineCount === undefined ? -1 : ret.lineCount]; | ||
} | ||
return _context.abrupt("return", -1); | ||
case 7: | ||
ret = index.stats || {}; | ||
return _context.abrupt("return", ret.lineCount === undefined ? -1 : ret.lineCount); | ||
case 9: | ||
case "end": | ||
return _context.stop(); | ||
} | ||
} | ||
}, _callee, this); | ||
})); | ||
function lineCount(_x) { | ||
return _lineCount.apply(this, arguments); | ||
} | ||
return lineCount; | ||
}() // fetch and parse the index | ||
}, { | ||
key: "_parse", | ||
value: function () { | ||
var _parse2 = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee2() { | ||
var opts, | ||
data, | ||
bytes, | ||
depth, | ||
binLimit, | ||
currOffset, | ||
i, | ||
binCount, | ||
stats, | ||
binIndex, | ||
j, | ||
bin, | ||
chunkCount, | ||
chunks, | ||
k, | ||
u, | ||
v, | ||
linearCount, | ||
linearIndex, | ||
_k, | ||
_args2 = arguments; | ||
return _regenerator.default.wrap(function _callee2$(_context2) { | ||
while (1) { | ||
switch (_context2.prev = _context2.next) { | ||
case 0: | ||
opts = _args2.length > 0 && _args2[0] !== undefined ? _args2[0] : {}; | ||
data = { | ||
bai: true, | ||
maxBlockSize: 1 << 16 | ||
}; | ||
_context2.next = 4; | ||
return this.filehandle.readFile(opts); | ||
case 4: | ||
bytes = _context2.sent; | ||
if (!(bytes.readUInt32LE(0) !== BAI_MAGIC)) { | ||
_context2.next = 7; | ||
break; | ||
}); | ||
}); | ||
}; | ||
BAI.prototype.fetchBai = function (opts) { | ||
var _this = this; | ||
if (opts === void 0) { opts = {}; } | ||
if (!this.baiP) { | ||
this.baiP = this.filehandle.readFile(opts).catch(function (e) { | ||
_this.baiP = undefined; | ||
throw e; | ||
}); | ||
} | ||
return this.baiP; | ||
}; | ||
// fetch and parse the index | ||
BAI.prototype._parse = function (opts) { | ||
if (opts === void 0) { opts = {}; } | ||
return __awaiter(this, void 0, void 0, function () { | ||
var data, bytes, depth, binLimit, currOffset, i, binCount, stats, binIndex, j, bin, chunkCount, chunks, k, u, v, linearCount, linearIndex, k; | ||
return __generator(this, function (_a) { | ||
switch (_a.label) { | ||
case 0: | ||
data = { bai: true, maxBlockSize: 1 << 16 }; | ||
return [4 /*yield*/, this.fetchBai() | ||
// check BAI magic numbers | ||
]; | ||
case 1: | ||
bytes = _a.sent(); | ||
// check BAI magic numbers | ||
if (bytes.readUInt32LE(0) !== BAI_MAGIC) { | ||
throw new Error('Not a BAI file'); | ||
} | ||
data.refCount = bytes.readInt32LE(4); | ||
depth = 5; | ||
binLimit = ((1 << ((depth + 1) * 3)) - 1) / 7; | ||
// read the indexes for each reference sequence | ||
data.indices = new Array(data.refCount); | ||
currOffset = 8; | ||
i = 0; | ||
_a.label = 2; | ||
case 2: | ||
if (!(i < data.refCount)) return [3 /*break*/, 5]; | ||
return [4 /*yield*/, (0, util_1.abortBreakPoint)(opts.signal) | ||
// the binning index | ||
]; | ||
case 3: | ||
_a.sent(); | ||
binCount = bytes.readInt32LE(currOffset); | ||
stats = void 0; | ||
currOffset += 4; | ||
binIndex = {}; | ||
for (j = 0; j < binCount; j += 1) { | ||
bin = bytes.readUInt32LE(currOffset); | ||
currOffset += 4; | ||
if (bin === binLimit + 1) { | ||
currOffset += 4; | ||
stats = this.parsePseudoBin(bytes, currOffset); | ||
currOffset += 32; | ||
} | ||
else if (bin > binLimit + 1) { | ||
throw new Error('bai index contains too many bins, please use CSI'); | ||
} | ||
else { | ||
chunkCount = bytes.readInt32LE(currOffset); | ||
currOffset += 4; | ||
chunks = new Array(chunkCount); | ||
for (k = 0; k < chunkCount; k += 1) { | ||
u = (0, virtualOffset_1.fromBytes)(bytes, currOffset); | ||
v = (0, virtualOffset_1.fromBytes)(bytes, currOffset + 8); | ||
currOffset += 16; | ||
this._findFirstData(data, u); | ||
chunks[k] = new chunk_1.default(u, v, bin); | ||
} | ||
binIndex[bin] = chunks; | ||
} | ||
} | ||
linearCount = bytes.readInt32LE(currOffset); | ||
currOffset += 4; | ||
linearIndex = new Array(linearCount); | ||
for (k = 0; k < linearCount; k += 1) { | ||
linearIndex[k] = (0, virtualOffset_1.fromBytes)(bytes, currOffset); | ||
currOffset += 8; | ||
this._findFirstData(data, linearIndex[k]); | ||
} | ||
data.indices[i] = { binIndex: binIndex, linearIndex: linearIndex, stats: stats }; | ||
_a.label = 4; | ||
case 4: | ||
i += 1; | ||
return [3 /*break*/, 2]; | ||
case 5: return [2 /*return*/, data]; | ||
} | ||
throw new Error('Not a BAI file'); | ||
case 7: | ||
data.refCount = bytes.readInt32LE(4); | ||
depth = 5; | ||
binLimit = ((1 << (depth + 1) * 3) - 1) / 7; // read the indexes for each reference sequence | ||
data.indices = new Array(data.refCount); | ||
currOffset = 8; | ||
i = 0; | ||
case 13: | ||
if (!(i < data.refCount)) { | ||
_context2.next = 50; | ||
break; | ||
}); | ||
}); | ||
}; | ||
BAI.prototype.indexCov = function (seqId, start, end, opts) { | ||
if (opts === void 0) { opts = {}; } | ||
return __awaiter(this, void 0, void 0, function () { | ||
var v, range, indexData, seqIdx, _a, linearIndex, stats, e, s, depths, totalSize, currentPos, i, j; | ||
return __generator(this, function (_b) { | ||
switch (_b.label) { | ||
case 0: | ||
v = 16384; | ||
range = start !== undefined; | ||
return [4 /*yield*/, this.parse(opts)]; | ||
case 1: | ||
indexData = _b.sent(); | ||
seqIdx = indexData.indices[seqId]; | ||
if (!seqIdx) { | ||
return [2 /*return*/, []]; | ||
} | ||
_a = seqIdx.linearIndex, linearIndex = _a === void 0 ? [] : _a, stats = seqIdx.stats; | ||
if (!linearIndex.length) { | ||
return [2 /*return*/, []]; | ||
} | ||
e = end !== undefined ? roundUp(end, v) : (linearIndex.length - 1) * v; | ||
s = start !== undefined ? roundDown(start, v) : 0; | ||
if (range) { | ||
depths = new Array((e - s) / v); | ||
} | ||
else { | ||
depths = new Array(linearIndex.length - 1); | ||
} | ||
totalSize = linearIndex[linearIndex.length - 1].blockPosition; | ||
if (e > (linearIndex.length - 1) * v) { | ||
throw new Error('query outside of range of linear index'); | ||
} | ||
currentPos = linearIndex[s / v].blockPosition; | ||
for (i = s / v, j = 0; i < e / v; i++, j++) { | ||
depths[j] = { | ||
score: linearIndex[i + 1].blockPosition - currentPos, | ||
start: i * v, | ||
end: i * v + v, | ||
}; | ||
currentPos = linearIndex[i + 1].blockPosition; | ||
} | ||
return [2 /*return*/, depths.map(function (d) { | ||
return __assign(__assign({}, d), { score: (d.score * stats.lineCount) / totalSize }); | ||
})]; | ||
} | ||
_context2.next = 16; | ||
return (0, _util.abortBreakPoint)(opts.signal); | ||
case 16: | ||
// the binning index | ||
binCount = bytes.readInt32LE(currOffset); | ||
stats = void 0; | ||
currOffset += 4; | ||
binIndex = {}; | ||
j = 0; | ||
case 21: | ||
if (!(j < binCount)) { | ||
_context2.next = 42; | ||
break; | ||
} | ||
bin = bytes.readUInt32LE(currOffset); | ||
currOffset += 4; | ||
if (!(bin === binLimit + 1)) { | ||
_context2.next = 30; | ||
break; | ||
} | ||
currOffset += 4; | ||
stats = this.parsePseudoBin(bytes, currOffset); | ||
currOffset += 32; | ||
_context2.next = 39; | ||
break; | ||
case 30: | ||
if (!(bin > binLimit + 1)) { | ||
_context2.next = 34; | ||
break; | ||
} | ||
throw new Error('bai index contains too many bins, please use CSI'); | ||
case 34: | ||
chunkCount = bytes.readInt32LE(currOffset); | ||
currOffset += 4; | ||
chunks = new Array(chunkCount); | ||
for (k = 0; k < chunkCount; k += 1) { | ||
u = (0, _virtualOffset.fromBytes)(bytes, currOffset); | ||
v = (0, _virtualOffset.fromBytes)(bytes, currOffset + 8); | ||
currOffset += 16; | ||
this._findFirstData(data, u); | ||
chunks[k] = new _chunk.default(u, v, bin); | ||
} | ||
binIndex[bin] = chunks; | ||
case 39: | ||
j += 1; | ||
_context2.next = 21; | ||
break; | ||
case 42: | ||
linearCount = bytes.readInt32LE(currOffset); | ||
currOffset += 4; // as we're going through the linear index, figure out | ||
// the smallest virtual offset in the indexes, which | ||
// tells us where the BAM header ends | ||
linearIndex = new Array(linearCount); | ||
for (_k = 0; _k < linearCount; _k += 1) { | ||
linearIndex[_k] = (0, _virtualOffset.fromBytes)(bytes, currOffset); | ||
currOffset += 8; | ||
this._findFirstData(data, linearIndex[_k]); | ||
} | ||
data.indices[i] = { | ||
binIndex: binIndex, | ||
linearIndex: linearIndex, | ||
stats: stats | ||
}; | ||
case 47: | ||
i += 1; | ||
_context2.next = 13; | ||
break; | ||
case 50: | ||
return _context2.abrupt("return", data); | ||
case 51: | ||
case "end": | ||
return _context2.stop(); | ||
} | ||
} | ||
}, _callee2, this); | ||
})); | ||
function _parse() { | ||
return _parse2.apply(this, arguments); | ||
} | ||
return _parse; | ||
}() | ||
}, { | ||
key: "indexCov", | ||
value: function () { | ||
var _indexCov = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee3(seqId, start, end) { | ||
var opts, | ||
v, | ||
range, | ||
indexData, | ||
seqIdx, | ||
_seqIdx$linearIndex, | ||
linearIndex, | ||
stats, | ||
e, | ||
s, | ||
depths, | ||
totalSize, | ||
currentPos, | ||
i, | ||
j, | ||
_args3 = arguments; | ||
return _regenerator.default.wrap(function _callee3$(_context3) { | ||
while (1) { | ||
switch (_context3.prev = _context3.next) { | ||
case 0: | ||
opts = _args3.length > 3 && _args3[3] !== undefined ? _args3[3] : {}; | ||
v = 16384; | ||
range = start !== undefined; | ||
_context3.next = 5; | ||
return this.parse(opts); | ||
case 5: | ||
indexData = _context3.sent; | ||
seqIdx = indexData.indices[seqId]; | ||
if (seqIdx) { | ||
_context3.next = 9; | ||
break; | ||
} | ||
return _context3.abrupt("return", []); | ||
case 9: | ||
_seqIdx$linearIndex = seqIdx.linearIndex, linearIndex = _seqIdx$linearIndex === void 0 ? [] : _seqIdx$linearIndex, stats = seqIdx.stats; | ||
if (linearIndex.length) { | ||
_context3.next = 12; | ||
break; | ||
} | ||
return _context3.abrupt("return", []); | ||
case 12: | ||
e = end !== undefined ? roundUp(end, v) : (linearIndex.length - 1) * v; | ||
s = start !== undefined ? roundDown(start, v) : 0; | ||
if (range) { | ||
depths = new Array((e - s) / v); | ||
} else { | ||
depths = new Array(linearIndex.length - 1); | ||
} | ||
totalSize = linearIndex[linearIndex.length - 1].blockPosition; | ||
if (!(e > (linearIndex.length - 1) * v)) { | ||
_context3.next = 18; | ||
break; | ||
} | ||
throw new Error('query outside of range of linear index'); | ||
case 18: | ||
currentPos = linearIndex[s / v].blockPosition; | ||
for (i = s / v, j = 0; i < e / v; i++, j++) { | ||
depths[j] = { | ||
score: linearIndex[i + 1].blockPosition - currentPos, | ||
start: i * v, | ||
end: i * v + v | ||
}; | ||
currentPos = linearIndex[i + 1].blockPosition; | ||
} | ||
return _context3.abrupt("return", (0, _map.default)(depths).call(depths, function (d) { | ||
return _objectSpread(_objectSpread({}, d), {}, { | ||
score: d.score * stats.lineCount / totalSize | ||
}); | ||
})); | ||
case 21: | ||
case "end": | ||
return _context3.stop(); | ||
} | ||
} | ||
}, _callee3, this); | ||
})); | ||
function indexCov(_x2, _x3, _x4) { | ||
return _indexCov.apply(this, arguments); | ||
} | ||
return indexCov; | ||
}() | ||
}); | ||
}); | ||
}; | ||
/** | ||
@@ -436,131 +251,68 @@ * calculate the list of bins that may overlap with region [beg,end) (zero-based half-open) | ||
*/ | ||
}, { | ||
key: "reg2bins", | ||
value: function reg2bins(beg, end) { | ||
end -= 1; | ||
return [[0, 0], [1 + (beg >> 26), 1 + (end >> 26)], [9 + (beg >> 23), 9 + (end >> 23)], [73 + (beg >> 20), 73 + (end >> 20)], [585 + (beg >> 17), 585 + (end >> 17)], [4681 + (beg >> 14), 4681 + (end >> 14)]]; | ||
} | ||
}, { | ||
key: "blocksForRange", | ||
value: function () { | ||
var _blocksForRange = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee4(refId, min, max) { | ||
var opts, | ||
indexData, | ||
ba, | ||
overlappingBins, | ||
chunks, | ||
_iterator, | ||
_step, | ||
_step$value, | ||
start, | ||
end, | ||
bin, | ||
binChunks, | ||
c, | ||
nintv, | ||
lowest, | ||
minLin, | ||
maxLin, | ||
i, | ||
vp, | ||
_args4 = arguments; | ||
return _regenerator.default.wrap(function _callee4$(_context4) { | ||
while (1) { | ||
switch (_context4.prev = _context4.next) { | ||
case 0: | ||
opts = _args4.length > 3 && _args4[3] !== undefined ? _args4[3] : {}; | ||
if (min < 0) { | ||
min = 0; | ||
} | ||
_context4.next = 4; | ||
return this.parse(opts); | ||
case 4: | ||
indexData = _context4.sent; | ||
if (indexData) { | ||
_context4.next = 7; | ||
break; | ||
} | ||
return _context4.abrupt("return", []); | ||
case 7: | ||
ba = indexData.indices[refId]; | ||
if (ba) { | ||
_context4.next = 10; | ||
break; | ||
} | ||
return _context4.abrupt("return", []); | ||
case 10: | ||
overlappingBins = this.reg2bins(min, max); // List of bin #s that overlap min, max | ||
chunks = []; // Find chunks in overlapping bins. Leaf bins (< 4681) are not pruned | ||
_iterator = _createForOfIteratorHelper(overlappingBins); | ||
try { | ||
for (_iterator.s(); !(_step = _iterator.n()).done;) { | ||
_step$value = (0, _slicedToArray2.default)(_step.value, 2), start = _step$value[0], end = _step$value[1]; | ||
for (bin = start; bin <= end; bin++) { | ||
if (ba.binIndex[bin]) { | ||
binChunks = ba.binIndex[bin]; | ||
for (c = 0; c < binChunks.length; ++c) { | ||
chunks.push(new _chunk.default(binChunks[c].minv, binChunks[c].maxv, bin)); | ||
BAI.prototype.reg2bins = function (beg, end) { | ||
end -= 1; | ||
return [ | ||
[0, 0], | ||
[1 + (beg >> 26), 1 + (end >> 26)], | ||
[9 + (beg >> 23), 9 + (end >> 23)], | ||
[73 + (beg >> 20), 73 + (end >> 20)], | ||
[585 + (beg >> 17), 585 + (end >> 17)], | ||
[4681 + (beg >> 14), 4681 + (end >> 14)], | ||
]; | ||
}; | ||
BAI.prototype.blocksForRange = function (refId, min, max, opts) { | ||
if (opts === void 0) { opts = {}; } | ||
return __awaiter(this, void 0, void 0, function () { | ||
var indexData, ba, overlappingBins, chunks, _i, overlappingBins_1, _a, start, end, bin, binChunks, c, nintv, lowest, minLin, maxLin, i, vp; | ||
return __generator(this, function (_b) { | ||
switch (_b.label) { | ||
case 0: | ||
if (min < 0) { | ||
min = 0; | ||
} | ||
} | ||
} | ||
} // Use the linear index to find minimum file position of chunks that could contain alignments in the region | ||
} catch (err) { | ||
_iterator.e(err); | ||
} finally { | ||
_iterator.f(); | ||
return [4 /*yield*/, this.parse(opts)]; | ||
case 1: | ||
indexData = _b.sent(); | ||
if (!indexData) { | ||
return [2 /*return*/, []]; | ||
} | ||
ba = indexData.indices[refId]; | ||
if (!ba) { | ||
return [2 /*return*/, []]; | ||
} | ||
overlappingBins = this.reg2bins(min, max) // List of bin #s that overlap min, max | ||
; | ||
chunks = []; | ||
// Find chunks in overlapping bins. Leaf bins (< 4681) are not pruned | ||
for (_i = 0, overlappingBins_1 = overlappingBins; _i < overlappingBins_1.length; _i++) { | ||
_a = overlappingBins_1[_i], start = _a[0], end = _a[1]; | ||
for (bin = start; bin <= end; bin++) { | ||
if (ba.binIndex[bin]) { | ||
binChunks = ba.binIndex[bin]; | ||
for (c = 0; c < binChunks.length; ++c) { | ||
chunks.push(new chunk_1.default(binChunks[c].minv, binChunks[c].maxv, bin)); | ||
} | ||
} | ||
} | ||
} | ||
nintv = ba.linearIndex.length; | ||
lowest = null; | ||
minLin = Math.min(min >> 14, nintv - 1); | ||
maxLin = Math.min(max >> 14, nintv - 1); | ||
for (i = minLin; i <= maxLin; ++i) { | ||
vp = ba.linearIndex[i]; | ||
if (vp) { | ||
if (!lowest || vp.compareTo(lowest) < 0) { | ||
lowest = vp; | ||
} | ||
} | ||
} | ||
return [2 /*return*/, (0, util_1.optimizeChunks)(chunks, lowest)]; | ||
} | ||
nintv = ba.linearIndex.length; | ||
lowest = null; | ||
minLin = Math.min(min >> 14, nintv - 1); | ||
maxLin = Math.min(max >> 14, nintv - 1); | ||
for (i = minLin; i <= maxLin; ++i) { | ||
vp = ba.linearIndex[i]; | ||
if (vp) { | ||
if (!lowest || vp.compareTo(lowest) < 0) { | ||
lowest = vp; | ||
} | ||
} | ||
} | ||
return _context4.abrupt("return", (0, _util.optimizeChunks)(chunks, lowest)); | ||
case 20: | ||
case "end": | ||
return _context4.stop(); | ||
} | ||
} | ||
}, _callee4, this); | ||
})); | ||
function blocksForRange(_x5, _x6, _x7) { | ||
return _blocksForRange.apply(this, arguments); | ||
} | ||
return blocksForRange; | ||
}() | ||
}]); | ||
return BAI; | ||
}(_indexFile.default); | ||
}); | ||
}); | ||
}; | ||
return BAI; | ||
}(indexFile_1.default)); | ||
exports.default = BAI; | ||
//# sourceMappingURL=data:application/json;charset=utf-8;base64,{"version":3,"sources":["../src/bai.ts"],"names":["BAI_MAGIC","roundDown","n","multiple","roundUp","BAI","bytes","offset","lineCount","Long","fromBytesLE","Array","prototype","call","refId","opts","parse","prom","index","indices","ret","stats","undefined","data","bai","maxBlockSize","filehandle","readFile","readUInt32LE","Error","refCount","readInt32LE","depth","binLimit","currOffset","i","signal","binCount","binIndex","j","bin","parsePseudoBin","chunkCount","chunks","k","u","v","_findFirstData","Chunk","linearCount","linearIndex","seqId","start","end","range","indexData","seqIdx","length","e","s","depths","totalSize","blockPosition","currentPos","score","d","beg","min","max","ba","overlappingBins","reg2bins","binChunks","c","push","minv","maxv","nintv","lowest","minLin","Math","maxLin","vp","compareTo","IndexFile"],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA;;AACA;;AACA;;AAEA;;AACA;;;;;;;;;;;;;;;;AAEA,IAAMA,SAAS,GAAG,QAAlB,C,CAA2B;;AAE3B,SAASC,SAAT,CAAmBC,CAAnB,EAA8BC,QAA9B,EAAgD;AAC9C,SAAOD,CAAC,GAAIA,CAAC,GAAGC,QAAhB;AACD;;AACD,SAASC,OAAT,CAAiBF,CAAjB,EAA4BC,QAA5B,EAA8C;AAC5C,SAAOD,CAAC,GAAIA,CAAC,GAAGC,QAAT,GAAqBA,QAA5B;AACD;;IAEoBE,G;;;;;;;;;;;;mCACJC,K,EAAeC,M,EAAgB;AAC5C,UAAMC,SAAS,GAAG,wBAChBC,cAAKC,WAAL,CAAiB,oBAAAC,KAAK,CAACC,SAAN,EAAsBC,IAAtB,CAA2BP,KAA3B,EAAkCC,MAAM,GAAG,EAA3C,EAA+CA,MAAM,GAAG,EAAxD,CAAjB,EAA8E,IAA9E,CADgB,CAAlB;AAGA,aAAO;AAAEC,QAAAA,SAAS,EAATA;AAAF,OAAP;AACD;;;;gHAEeM,K;;;;;;;;;;AAAeC,gBAAAA,I,2DAAiB,E;;uBAC3B,KAAKC,KAAL,CAAWD,IAAX,C;;;AAAbE,gBAAAA,I;AACAC,gBAAAA,K,GAAQD,IAAI,CAACE,OAAL,CAAaL,KAAb,C;;oBACTI,K;;;;;iDACI,CAAC,C;;;AAEJE,gBAAAA,G,GAAMF,KAAK,CAACG,KAAN,IAAe,E;iDACpBD,GAAG,CAACZ,SAAJ,KAAkBc,SAAlB,GAA8B,CAAC,CAA/B,GAAmCF,GAAG,CAACZ,S;;;;;;;;;;;;;;;QAGhD;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;AACaO,gBAAAA,I,8DAAiB,E;AACtBQ,gBAAAA,I,GAA+B;AAAEC,kBAAAA,GAAG,EAAE,IAAP;AAAaC,kBAAAA,YAAY,EAAE,KAAK;AAAhC,iB;;uBAChB,KAAKC,UAAL,CAAgBC,QAAhB,CAAyBZ,IAAzB,C;;;AAAfT,gBAAAA,K;;sBAGFA,KAAK,CAACsB,YAAN,CAAmB,CAAnB,MAA0B5B,S;;;;;sBACtB,IAAI6B,KAAJ,CAAU,gBAAV,C;;;AAGRN,gBAAAA,IAAI,CAACO,QAAL,GAAgBxB,KAAK,CAACyB,WAAN,CAAkB,CAAlB,CAAhB;AACMC,gBAAAA,K,GAAQ,C;AACRC,gBAAAA,Q,GAAW,CAAC,CAAC,KAAM,CAACD,KAAK,GAAG,CAAT,IAAc,CAArB,IAA2B,CAA5B,IAAiC,C,EAElD;;AACAT,gBAAAA,IAAI,CAACJ,OAAL,GAAe,IAAIR,KAAJ,CAAUY,IAAI,CAACO,QAAf,CAAf;AACII,gBAAAA,U,GAAa,C;AACRC,gBAAAA,C,GAAI,C;;;sBAAGA,CAAC,GAAGZ,IAAI,CAACO,Q;;;;;;uBACjB,2BAAgBf,IAAI,CAACqB,MAArB,C;;;AAEN;AACMC,gBAAAA,Q,GAAW/B,KAAK,CAACyB,WAAN,CAAkBG,UAAlB,C;AACbb,gBAAAA,K;AAEJa,gBAAAA,UAAU,IAAI,CAAd;AACMI,gBAAAA,Q,GAAuC,E;AACpCC,gBAAAA,C,GAAI,C;;;sBAAGA,CAAC,GAAGF,Q;;;;;AACZG,gBAAAA,G,GAAMlC,KAAK,CAACsB,YAAN,CAAmBM,UAAnB,C;AACZA,gBAAAA,UAAU,IAAI,CAAd;;sBACIM,GAAG,KAAKP,QAAQ,GAAG,C;;;;;AACrBC,gBAAAA,UAAU,IAAI,CAAd;AACAb,gBAAAA,KAAK,GAAG,KAAKoB,cAAL,CAAoBnC,KAApB,EAA2B4B,UAA3B,CAAR;AACAA,gBAAAA,UAAU,IAAI,EAAd;;;;;sBACSM,GAAG,GAAGP,QAAQ,GAAG,C;;;;;sBACpB,IAAIJ,KAAJ,CAAU,kDAAV,C;;;AAEAa,gBAAAA,U,GAAapC,KAAK,CAACyB,WAAN,CAAkBG,UAAlB,C;AACnBA,gBAAAA,UAAU,IAAI,CAAd;AACMS,gBAAAA,M,GAAS,IAAIhC,KAAJ,CAAU+B,UAAV,C;;AACf,qBAASE,CAAT,GAAa,CAAb,EAAgBA,CAAC,GAAGF,UAApB,EAAgCE,CAAC,IAAI,CAArC,EAAwC;AAChCC,kBAAAA,CADgC,GAC5B,8BAAUvC,KAAV,EAAiB4B,UAAjB,CAD4B;AAEhCY,kBAAAA,CAFgC,GAE5B,8BAAUxC,KAAV,EAAiB4B,UAAU,GAAG,CAA9B,CAF4B;AAGtCA,kBAAAA,UAAU,IAAI,EAAd;;AACA,uBAAKa,cAAL,CAAoBxB,IAApB,EAA0BsB,CAA1B;;AACAF,kBAAAA,MAAM,CAACC,CAAD,CAAN,GAAY,IAAII,cAAJ,CAAUH,CAAV,EAAaC,CAAb,EAAgBN,GAAhB,CAAZ;AACD;;AACDF,gBAAAA,QAAQ,CAACE,GAAD,CAAR,GAAgBG,MAAhB;;;AApB0BJ,gBAAAA,CAAC,IAAI,C;;;;;AAwB7BU,gBAAAA,W,GAAc3C,KAAK,CAACyB,WAAN,CAAkBG,UAAlB,C;AACpBA,gBAAAA,UAAU,IAAI,CAAd,C,CACA;AACA;AACA;;AACMgB,gBAAAA,W,GAAc,IAAIvC,KAAJ,CAAUsC,WAAV,C;;AACpB,qBAASL,EAAT,GAAa,CAAb,EAAgBA,EAAC,GAAGK,WAApB,EAAiCL,EAAC,IAAI,CAAtC,EAAyC;AACvCM,kBAAAA,WAAW,CAACN,EAAD,CAAX,GAAiB,8BAAUtC,KAAV,EAAiB4B,UAAjB,CAAjB;AACAA,kBAAAA,UAAU,IAAI,CAAd;;AACA,uBAAKa,cAAL,CAAoBxB,IAApB,EAA0B2B,WAAW,CAACN,EAAD,CAArC;AACD;;AAEDrB,gBAAAA,IAAI,CAACJ,OAAL,CAAagB,CAAb,IAAkB;AAAEG,kBAAAA,QAAQ,EAARA,QAAF;AAAYY,kBAAAA,WAAW,EAAXA,WAAZ;AAAyB7B,kBAAAA,KAAK,EAALA;AAAzB,iBAAlB;;;AA7CiCc,gBAAAA,CAAC,IAAI,C;;;;;kDAgDjCZ,I;;;;;;;;;;;;;;;;;;;gHAIP4B,K,EACAC,K,EACAC,G;;;;;;;;;;;;;;;;;;;;;;AACAtC,gBAAAA,I,8DAAiB,E;AAEX+B,gBAAAA,C,GAAI,K;AACJQ,gBAAAA,K,GAAQF,KAAK,KAAK9B,S;;uBACA,KAAKN,KAAL,CAAWD,IAAX,C;;;AAAlBwC,gBAAAA,S;AACAC,gBAAAA,M,GAASD,SAAS,CAACpC,OAAV,CAAkBgC,KAAlB,C;;oBACVK,M;;;;;kDACI,E;;;sCAE2BA,M,CAA5BN,W,EAAAA,W,oCAAc,E,wBAAI7B,K,GAAUmC,M,CAAVnC,K;;oBACrB6B,WAAW,CAACO,M;;;;;kDACR,E;;;AAEHC,gBAAAA,C,GAAIL,GAAG,KAAK/B,SAAR,GAAoBlB,OAAO,CAACiD,GAAD,EAAMP,CAAN,CAA3B,GAAsC,CAACI,WAAW,CAACO,MAAZ,GAAqB,CAAtB,IAA2BX,C;AACrEa,gBAAAA,C,GAAIP,KAAK,KAAK9B,SAAV,GAAsBrB,SAAS,CAACmD,KAAD,EAAQN,CAAR,CAA/B,GAA4C,C;;AAEtD,oBAAIQ,KAAJ,EAAW;AACTM,kBAAAA,MAAM,GAAG,IAAIjD,KAAJ,CAAU,CAAC+C,CAAC,GAAGC,CAAL,IAAUb,CAApB,CAAT;AACD,iBAFD,MAEO;AACLc,kBAAAA,MAAM,GAAG,IAAIjD,KAAJ,CAAUuC,WAAW,CAACO,MAAZ,GAAqB,CAA/B,CAAT;AACD;;AACKI,gBAAAA,S,GAAYX,WAAW,CAACA,WAAW,CAACO,MAAZ,GAAqB,CAAtB,CAAX,CAAoCK,a;;sBAClDJ,CAAC,GAAG,CAACR,WAAW,CAACO,MAAZ,GAAqB,CAAtB,IAA2BX,C;;;;;sBAC3B,IAAIjB,KAAJ,CAAU,wCAAV,C;;;AAEJkC,gBAAAA,U,GAAab,WAAW,CAACS,CAAC,GAAGb,CAAL,CAAX,CAAmBgB,a;;AACpC,qBAAS3B,CAAT,GAAawB,CAAC,GAAGb,CAAjB,EAAoBP,CAApB,GAAwB,CAAxB,EAA2BJ,CAAC,GAAGuB,CAAC,GAAGZ,CAAnC,EAAsCX,CAAC,IAAII,CAAC,EAA5C,EAAgD;AAC9CqB,kBAAAA,MAAM,CAACrB,CAAD,CAAN,GAAY;AACVyB,oBAAAA,KAAK,EAAEd,WAAW,CAACf,CAAC,GAAG,CAAL,CAAX,CAAmB2B,aAAnB,GAAmCC,UADhC;AAEVX,oBAAAA,KAAK,EAAEjB,CAAC,GAAGW,CAFD;AAGVO,oBAAAA,GAAG,EAAElB,CAAC,GAAGW,CAAJ,GAAQA;AAHH,mBAAZ;AAKAiB,kBAAAA,UAAU,GAAGb,WAAW,CAACf,CAAC,GAAG,CAAL,CAAX,CAAmB2B,aAAhC;AACD;;kDACM,kBAAAF,MAAM,MAAN,CAAAA,MAAM,EAAK,UAAAK,CAAC,EAAI;AACrB,yDAAYA,CAAZ;AAAeD,oBAAAA,KAAK,EAAGC,CAAC,CAACD,KAAF,GAAU3C,KAAK,CAACb,SAAjB,GAA8BqD;AAApD;AACD,iBAFY,C;;;;;;;;;;;;;;;;AAKf;;;;;;;6BAISK,G,EAAab,G,EAAa;AACjCA,MAAAA,GAAG,IAAI,CAAP;AACA,aAAO,CACL,CAAC,CAAD,EAAI,CAAJ,CADK,EAEL,CAAC,KAAKa,GAAG,IAAI,EAAZ,CAAD,EAAkB,KAAKb,GAAG,IAAI,EAAZ,CAAlB,CAFK,EAGL,CAAC,KAAKa,GAAG,IAAI,EAAZ,CAAD,EAAkB,KAAKb,GAAG,IAAI,EAAZ,CAAlB,CAHK,EAIL,CAAC,MAAMa,GAAG,IAAI,EAAb,CAAD,EAAmB,MAAMb,GAAG,IAAI,EAAb,CAAnB,CAJK,EAKL,CAAC,OAAOa,GAAG,IAAI,EAAd,CAAD,EAAoB,OAAOb,GAAG,IAAI,EAAd,CAApB,CALK,EAML,CAAC,QAAQa,GAAG,IAAI,EAAf,CAAD,EAAqB,QAAQb,GAAG,IAAI,EAAf,CAArB,CANK,CAAP;AAQD;;;;sHAEoBvC,K,EAAeqD,G,EAAaC,G;;;;;;;;;;;;;;;;;;;;;;;;;;AAAarD,gBAAAA,I,8DAAiB,E;;AAC7E,oBAAIoD,GAAG,GAAG,CAAV,EAAa;AACXA,kBAAAA,GAAG,GAAG,CAAN;AACD;;;uBAEuB,KAAKnD,KAAL,CAAWD,IAAX,C;;;AAAlBwC,gBAAAA,S;;oBACDA,S;;;;;kDACI,E;;;AAEHc,gBAAAA,E,GAAKd,SAAS,CAACpC,OAAV,CAAkBL,KAAlB,C;;oBACNuD,E;;;;;kDACI,E;;;AAGHC,gBAAAA,e,GAAkB,KAAKC,QAAL,CAAcJ,GAAd,EAAmBC,GAAnB,C,EAAwB;;AAC1CzB,gBAAAA,M,GAAkB,E,EAExB;;uDAC2B2B,e;;;AAA3B,sEAA4C;AAAA,gFAAhClB,KAAgC,mBAAzBC,GAAyB;;AAC1C,yBAASb,GAAT,GAAeY,KAAf,EAAsBZ,GAAG,IAAIa,GAA7B,EAAkCb,GAAG,EAArC,EAAyC;AACvC,0BAAI6B,EAAE,CAAC/B,QAAH,CAAYE,GAAZ,CAAJ,EAAsB;AACdgC,wBAAAA,SADc,GACFH,EAAE,CAAC/B,QAAH,CAAYE,GAAZ,CADE;;AAEpB,6BAASiC,CAAT,GAAa,CAAb,EAAgBA,CAAC,GAAGD,SAAS,CAACf,MAA9B,EAAsC,EAAEgB,CAAxC,EAA2C;AACzC9B,0BAAAA,MAAM,CAAC+B,IAAP,CAAY,IAAI1B,cAAJ,CAAUwB,SAAS,CAACC,CAAD,CAAT,CAAaE,IAAvB,EAA6BH,SAAS,CAACC,CAAD,CAAT,CAAaG,IAA1C,EAAgDpC,GAAhD,CAAZ;AACD;AACF;AACF;AACF,mB,CAED;;;;;;;;AACMqC,gBAAAA,K,GAAQR,EAAE,CAACnB,WAAH,CAAeO,M;AACzBqB,gBAAAA,M,GAAS,I;AACPC,gBAAAA,M,GAASC,IAAI,CAACb,GAAL,CAASA,GAAG,IAAI,EAAhB,EAAoBU,KAAK,GAAG,CAA5B,C;AACTI,gBAAAA,M,GAASD,IAAI,CAACb,GAAL,CAASC,GAAG,IAAI,EAAhB,EAAoBS,KAAK,GAAG,CAA5B,C;;AACf,qBAAS1C,CAAT,GAAa4C,MAAb,EAAqB5C,CAAC,IAAI8C,MAA1B,EAAkC,EAAE9C,CAApC,EAAuC;AAC/B+C,kBAAAA,EAD+B,GAC1Bb,EAAE,CAACnB,WAAH,CAAef,CAAf,CAD0B;;AAErC,sBAAI+C,EAAJ,EAAQ;AACN,wBAAI,CAACJ,MAAD,IAAWI,EAAE,CAACC,SAAH,CAAaL,MAAb,IAAuB,CAAtC,EAAyC;AACvCA,sBAAAA,MAAM,GAAGI,EAAT;AACD;AACF;AACF;;kDAEM,0BAAevC,MAAf,EAAuBmC,MAAvB,C;;;;;;;;;;;;;;;;;;EA5LsBM,kB","sourcesContent":["import Long from 'long'\nimport { fromBytes } from './virtualOffset'\nimport Chunk from './chunk'\n\nimport IndexFile from './indexFile'\nimport { longToNumber, abortBreakPoint, optimizeChunks, BaseOpts } from './util'\n\nconst BAI_MAGIC = 21578050 // BAI\\1\n\nfunction roundDown(n: number, multiple: number) {\n  return n - (n % multiple)\n}\nfunction roundUp(n: number, multiple: number) {\n  return n - (n % multiple) + multiple\n}\n\nexport default class BAI extends IndexFile {\n  parsePseudoBin(bytes: Buffer, offset: number) {\n    const lineCount = longToNumber(\n      Long.fromBytesLE(Array.prototype.slice.call(bytes, offset + 16, offset + 24), true),\n    )\n    return { lineCount }\n  }\n\n  async lineCount(refId: number, opts: BaseOpts = {}) {\n    const prom = await this.parse(opts)\n    const index = prom.indices[refId]\n    if (!index) {\n      return -1\n    }\n    const ret = index.stats || {}\n    return ret.lineCount === undefined ? -1 : ret.lineCount\n  }\n\n  // fetch and parse the index\n  async _parse(opts: BaseOpts = {}) {\n    const data: { [key: string]: any } = { bai: true, maxBlockSize: 1 << 16 }\n    const bytes = (await this.filehandle.readFile(opts)) as Buffer\n\n    // check BAI magic numbers\n    if (bytes.readUInt32LE(0) !== BAI_MAGIC) {\n      throw new Error('Not a BAI file')\n    }\n\n    data.refCount = bytes.readInt32LE(4)\n    const depth = 5\n    const binLimit = ((1 << ((depth + 1) * 3)) - 1) / 7\n\n    // read the indexes for each reference sequence\n    data.indices = new Array(data.refCount)\n    let currOffset = 8\n    for (let i = 0; i < data.refCount; i += 1) {\n      await abortBreakPoint(opts.signal)\n\n      // the binning index\n      const binCount = bytes.readInt32LE(currOffset)\n      let stats\n\n      currOffset += 4\n      const binIndex: { [key: number]: Chunk[] } = {}\n      for (let j = 0; j < binCount; j += 1) {\n        const bin = bytes.readUInt32LE(currOffset)\n        currOffset += 4\n        if (bin === binLimit + 1) {\n          currOffset += 4\n          stats = this.parsePseudoBin(bytes, currOffset)\n          currOffset += 32\n        } else if (bin > binLimit + 1) {\n          throw new Error('bai index contains too many bins, please use CSI')\n        } else {\n          const chunkCount = bytes.readInt32LE(currOffset)\n          currOffset += 4\n          const chunks = new Array(chunkCount)\n          for (let k = 0; k < chunkCount; k += 1) {\n            const u = fromBytes(bytes, currOffset)\n            const v = fromBytes(bytes, currOffset + 8)\n            currOffset += 16\n            this._findFirstData(data, u)\n            chunks[k] = new Chunk(u, v, bin)\n          }\n          binIndex[bin] = chunks\n        }\n      }\n\n      const linearCount = bytes.readInt32LE(currOffset)\n      currOffset += 4\n      // as we're going through the linear index, figure out\n      // the smallest virtual offset in the indexes, which\n      // tells us where the BAM header ends\n      const linearIndex = new Array(linearCount)\n      for (let k = 0; k < linearCount; k += 1) {\n        linearIndex[k] = fromBytes(bytes, currOffset)\n        currOffset += 8\n        this._findFirstData(data, linearIndex[k])\n      }\n\n      data.indices[i] = { binIndex, linearIndex, stats }\n    }\n\n    return data\n  }\n\n  async indexCov(\n    seqId: number,\n    start?: number,\n    end?: number,\n    opts: BaseOpts = {},\n  ): Promise<{ start: number; end: number; score: number }[]> {\n    const v = 16384\n    const range = start !== undefined\n    const indexData = await this.parse(opts)\n    const seqIdx = indexData.indices[seqId]\n    if (!seqIdx) {\n      return []\n    }\n    const { linearIndex = [], stats } = seqIdx\n    if (!linearIndex.length) {\n      return []\n    }\n    const e = end !== undefined ? roundUp(end, v) : (linearIndex.length - 1) * v\n    const s = start !== undefined ? roundDown(start, v) : 0\n    let depths\n    if (range) {\n      depths = new Array((e - s) / v)\n    } else {\n      depths = new Array(linearIndex.length - 1)\n    }\n    const totalSize = linearIndex[linearIndex.length - 1].blockPosition\n    if (e > (linearIndex.length - 1) * v) {\n      throw new Error('query outside of range of linear index')\n    }\n    let currentPos = linearIndex[s / v].blockPosition\n    for (let i = s / v, j = 0; i < e / v; i++, j++) {\n      depths[j] = {\n        score: linearIndex[i + 1].blockPosition - currentPos,\n        start: i * v,\n        end: i * v + v,\n      }\n      currentPos = linearIndex[i + 1].blockPosition\n    }\n    return depths.map(d => {\n      return { ...d, score: (d.score * stats.lineCount) / totalSize }\n    })\n  }\n\n  /**\n   * calculate the list of bins that may overlap with region [beg,end) (zero-based half-open)\n   * @returns {Array[number]}\n   */\n  reg2bins(beg: number, end: number) {\n    end -= 1\n    return [\n      [0, 0],\n      [1 + (beg >> 26), 1 + (end >> 26)],\n      [9 + (beg >> 23), 9 + (end >> 23)],\n      [73 + (beg >> 20), 73 + (end >> 20)],\n      [585 + (beg >> 17), 585 + (end >> 17)],\n      [4681 + (beg >> 14), 4681 + (end >> 14)],\n    ]\n  }\n\n  async blocksForRange(refId: number, min: number, max: number, opts: BaseOpts = {}) {\n    if (min < 0) {\n      min = 0\n    }\n\n    const indexData = await this.parse(opts)\n    if (!indexData) {\n      return []\n    }\n    const ba = indexData.indices[refId]\n    if (!ba) {\n      return []\n    }\n\n    const overlappingBins = this.reg2bins(min, max) // List of bin #s that overlap min, max\n    const chunks: Chunk[] = []\n\n    // Find chunks in overlapping bins.  Leaf bins (< 4681) are not pruned\n    for (const [start, end] of overlappingBins) {\n      for (let bin = start; bin <= end; bin++) {\n        if (ba.binIndex[bin]) {\n          const binChunks = ba.binIndex[bin]\n          for (let c = 0; c < binChunks.length; ++c) {\n            chunks.push(new Chunk(binChunks[c].minv, binChunks[c].maxv, bin))\n          }\n        }\n      }\n    }\n\n    // Use the linear index to find minimum file position of chunks that could contain alignments in the region\n    const nintv = ba.linearIndex.length\n    let lowest = null\n    const minLin = Math.min(min >> 14, nintv - 1)\n    const maxLin = Math.min(max >> 14, nintv - 1)\n    for (let i = minLin; i <= maxLin; ++i) {\n      const vp = ba.linearIndex[i]\n      if (vp) {\n        if (!lowest || vp.compareTo(lowest) < 0) {\n          lowest = vp\n        }\n      }\n    }\n\n    return optimizeChunks(chunks, lowest)\n  }\n}\n"]} | ||
//# sourceMappingURL=bai.js.map |
@@ -14,3 +14,2 @@ /// <reference types="node" /> | ||
private header; | ||
protected featureCache: any; | ||
protected chrToIndex: any; | ||
@@ -26,3 +25,3 @@ protected indexToChr: any; | ||
*/ | ||
constructor({ bamFilehandle, bamPath, bamUrl, baiPath, baiFilehandle, baiUrl, csiPath, csiFilehandle, csiUrl, cacheSize, fetchSizeLimit, chunkSizeLimit, yieldThreadTime, renameRefSeqs, }: { | ||
constructor({ bamFilehandle, bamPath, bamUrl, baiPath, baiFilehandle, baiUrl, csiPath, csiFilehandle, csiUrl, fetchSizeLimit, chunkSizeLimit, yieldThreadTime, renameRefSeqs, }: { | ||
bamFilehandle?: GenericFilehandle; | ||
@@ -37,3 +36,2 @@ bamPath?: string; | ||
csiUrl?: string; | ||
cacheSize?: number; | ||
fetchSizeLimit?: number; | ||
@@ -66,9 +64,9 @@ chunkSizeLimit?: number; | ||
_readChunk({ chunk, opts }: { | ||
chunk: unknown; | ||
chunk: Chunk; | ||
opts: BaseOpts; | ||
}, abortSignal?: AbortSignal): Promise<never[] | { | ||
}): Promise<{ | ||
data: any; | ||
cpositions: any; | ||
dpositions: any; | ||
chunk: unknown; | ||
chunk: Chunk; | ||
}>; | ||
@@ -75,0 +73,0 @@ readBamFeatures(ba: Buffer, cpositions: number[], dpositions: number[], chunk: Chunk): Promise<BAMFeature[]>; |
"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 |
"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 |
832
dist/csi.js
"use strict"; | ||
var _interopRequireWildcard = require("@babel/runtime-corejs3/helpers/interopRequireWildcard"); | ||
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 | ||
var __extends = (this && this.__extends) || (function () { | ||
var extendStatics = function (d, b) { | ||
extendStatics = Object.setPrototypeOf || | ||
({ __proto__: [] } instanceof Array && function (d, b) { d.__proto__ = b; }) || | ||
function (d, b) { for (var p in b) if (Object.prototype.hasOwnProperty.call(b, p)) d[p] = b[p]; }; | ||
return extendStatics(d, b); | ||
}; | ||
return function (d, b) { | ||
if (typeof b !== "function" && b !== null) | ||
throw new TypeError("Class extends value " + String(b) + " is not a constructor or null"); | ||
extendStatics(d, b); | ||
function __() { this.constructor = d; } | ||
d.prototype = b === null ? Object.create(b) : (__.prototype = b.prototype, new __()); | ||
}; | ||
})(); | ||
var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) { | ||
if (k2 === undefined) k2 = k; | ||
Object.defineProperty(o, k2, { enumerable: true, get: function() { return m[k]; } }); | ||
}) : (function(o, m, k, k2) { | ||
if (k2 === undefined) k2 = k; | ||
o[k2] = m[k]; | ||
})); | ||
var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) { | ||
Object.defineProperty(o, "default", { enumerable: true, value: v }); | ||
}) : function(o, v) { | ||
o["default"] = v; | ||
}); | ||
exports.default = void 0; | ||
var _getIterator2 = _interopRequireDefault(require("@babel/runtime-corejs3/core-js/get-iterator")); | ||
var _isArray = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/array/is-array")); | ||
var _getIteratorMethod2 = _interopRequireDefault(require("@babel/runtime-corejs3/core-js/get-iterator-method")); | ||
var _symbol = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/symbol")); | ||
var _from = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/array/from")); | ||
var _construct = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/reflect/construct")); | ||
var _concat = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/concat")); | ||
var _slicedToArray2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/slicedToArray")); | ||
var _slice = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/slice")); | ||
var _assign = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/object/assign")); | ||
var _regenerator = _interopRequireDefault(require("@babel/runtime-corejs3/regenerator")); | ||
var _asyncToGenerator2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/asyncToGenerator")); | ||
var _classCallCheck2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/classCallCheck")); | ||
var _createClass2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/createClass")); | ||
var _assertThisInitialized2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/assertThisInitialized")); | ||
var _inherits2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/inherits")); | ||
var _possibleConstructorReturn2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/possibleConstructorReturn")); | ||
var _getPrototypeOf2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/getPrototypeOf")); | ||
var _defineProperty2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/defineProperty")); | ||
var _long = _interopRequireDefault(require("long")); | ||
var _bgzfFilehandle = require("@gmod/bgzf-filehandle"); | ||
var _virtualOffset = _interopRequireWildcard(require("./virtualOffset")); | ||
var _chunk = _interopRequireDefault(require("./chunk")); | ||
var _util = require("./util"); | ||
var _indexFile = _interopRequireDefault(require("./indexFile")); | ||
function _createForOfIteratorHelper(o, allowArrayLike) { var it; if (typeof _symbol.default === "undefined" || (0, _getIteratorMethod2.default)(o) == null) { if ((0, _isArray.default)(o) || (it = _unsupportedIterableToArray(o)) || allowArrayLike && o && typeof o.length === "number") { if (it) o = it; var i = 0; var F = function F() {}; return { s: F, n: function n() { if (i >= o.length) return { done: true }; return { done: false, value: o[i++] }; }, e: function e(_e) { throw _e; }, f: F }; } throw new TypeError("Invalid attempt to iterate non-iterable instance.\nIn order to be iterable, non-array objects must have a [Symbol.iterator]() method."); } var normalCompletion = true, didErr = false, err; return { s: function s() { it = (0, _getIterator2.default)(o); }, n: function n() { var step = it.next(); normalCompletion = step.done; return step; }, e: function e(_e2) { didErr = true; err = _e2; }, f: function f() { try { if (!normalCompletion && it.return != null) it.return(); } finally { if (didErr) throw err; } } }; } | ||
function _unsupportedIterableToArray(o, minLen) { var _context8; if (!o) return; if (typeof o === "string") return _arrayLikeToArray(o, minLen); var n = (0, _slice.default)(_context8 = Object.prototype.toString.call(o)).call(_context8, 8, -1); if (n === "Object" && o.constructor) n = o.constructor.name; if (n === "Map" || n === "Set") return (0, _from.default)(o); if (n === "Arguments" || /^(?:Ui|I)nt(?:8|16|32)(?:Clamped)?Array$/.test(n)) return _arrayLikeToArray(o, minLen); } | ||
function _arrayLikeToArray(arr, len) { if (len == null || len > arr.length) len = arr.length; for (var i = 0, arr2 = new Array(len); i < len; i++) { arr2[i] = arr[i]; } return arr2; } | ||
function _createSuper(Derived) { var hasNativeReflectConstruct = _isNativeReflectConstruct(); return function _createSuperInternal() { var Super = (0, _getPrototypeOf2.default)(Derived), result; if (hasNativeReflectConstruct) { var NewTarget = (0, _getPrototypeOf2.default)(this).constructor; result = (0, _construct.default)(Super, arguments, NewTarget); } else { result = Super.apply(this, arguments); } return (0, _possibleConstructorReturn2.default)(this, result); }; } | ||
function _isNativeReflectConstruct() { if (typeof Reflect === "undefined" || !_construct.default) return false; if (_construct.default.sham) return false; if (typeof Proxy === "function") return true; try { Date.prototype.toString.call((0, _construct.default)(Date, [], function () {})); return true; } catch (e) { return false; } } | ||
var __importStar = (this && this.__importStar) || function (mod) { | ||
if (mod && mod.__esModule) return mod; | ||
var result = {}; | ||
if (mod != null) for (var k in mod) if (k !== "default" && Object.prototype.hasOwnProperty.call(mod, k)) __createBinding(result, mod, k); | ||
__setModuleDefault(result, mod); | ||
return result; | ||
}; | ||
var __awaiter = (this && this.__awaiter) || function (thisArg, _arguments, P, generator) { | ||
function adopt(value) { return value instanceof P ? value : new P(function (resolve) { resolve(value); }); } | ||
return new (P || (P = Promise))(function (resolve, reject) { | ||
function fulfilled(value) { try { step(generator.next(value)); } catch (e) { reject(e); } } | ||
function rejected(value) { try { step(generator["throw"](value)); } catch (e) { reject(e); } } | ||
function step(result) { result.done ? resolve(result.value) : adopt(result.value).then(fulfilled, rejected); } | ||
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 }; | ||
} | ||
}; | ||
var __importDefault = (this && this.__importDefault) || function (mod) { | ||
return (mod && mod.__esModule) ? mod : { "default": mod }; | ||
}; | ||
Object.defineProperty(exports, "__esModule", { value: true }); | ||
var long_1 = __importDefault(require("long")); | ||
var bgzf_filehandle_1 = require("@gmod/bgzf-filehandle"); | ||
var virtualOffset_1 = __importStar(require("./virtualOffset")); | ||
var chunk_1 = __importDefault(require("./chunk")); | ||
var util_1 = require("./util"); | ||
var indexFile_1 = __importDefault(require("./indexFile")); | ||
var CSI1_MAGIC = 21582659; // CSI\1 | ||
var CSI2_MAGIC = 38359875; // CSI\2 | ||
function lshift(num, bits) { | ||
return num * Math.pow(2, bits); | ||
return num * Math.pow(2, bits); | ||
} | ||
function rshift(num, bits) { | ||
return Math.floor(num / Math.pow(2, bits)); | ||
return Math.floor(num / Math.pow(2, bits)); | ||
} | ||
var CSI = /*#__PURE__*/function (_IndexFile) { | ||
(0, _inherits2.default)(CSI, _IndexFile); | ||
var _super = _createSuper(CSI); | ||
function CSI(args) { | ||
var _this; | ||
(0, _classCallCheck2.default)(this, CSI); | ||
_this = _super.call(this, args); | ||
(0, _defineProperty2.default)((0, _assertThisInitialized2.default)(_this), "maxBinNumber", void 0); | ||
(0, _defineProperty2.default)((0, _assertThisInitialized2.default)(_this), "depth", void 0); | ||
(0, _defineProperty2.default)((0, _assertThisInitialized2.default)(_this), "minShift", void 0); | ||
_this.maxBinNumber = 0; | ||
_this.depth = 0; | ||
_this.minShift = 0; | ||
return _this; | ||
} | ||
(0, _createClass2.default)(CSI, [{ | ||
key: "lineCount", | ||
value: function () { | ||
var _lineCount = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee(refId) { | ||
var indexData, idx, stats; | ||
return _regenerator.default.wrap(function _callee$(_context) { | ||
while (1) { | ||
switch (_context.prev = _context.next) { | ||
case 0: | ||
_context.next = 2; | ||
return this.parse(); | ||
case 2: | ||
indexData = _context.sent; | ||
if (indexData) { | ||
_context.next = 5; | ||
break; | ||
var CSI = /** @class */ (function (_super) { | ||
__extends(CSI, _super); | ||
function CSI(args) { | ||
var _this = _super.call(this, args) || this; | ||
_this.maxBinNumber = 0; | ||
_this.depth = 0; | ||
_this.minShift = 0; | ||
return _this; | ||
} | ||
CSI.prototype.lineCount = function (refId) { | ||
return __awaiter(this, void 0, void 0, function () { | ||
var indexData, idx, stats; | ||
return __generator(this, function (_a) { | ||
switch (_a.label) { | ||
case 0: return [4 /*yield*/, this.parse()]; | ||
case 1: | ||
indexData = _a.sent(); | ||
if (!indexData) { | ||
return [2 /*return*/, -1]; | ||
} | ||
idx = indexData.indices[refId]; | ||
if (!idx) { | ||
return [2 /*return*/, -1]; | ||
} | ||
stats = indexData.indices[refId].stats; | ||
if (stats) { | ||
return [2 /*return*/, stats.lineCount]; | ||
} | ||
return [2 /*return*/, -1]; | ||
} | ||
return _context.abrupt("return", -1); | ||
case 5: | ||
idx = indexData.indices[refId]; | ||
if (idx) { | ||
_context.next = 8; | ||
break; | ||
}); | ||
}); | ||
}; | ||
CSI.prototype.indexCov = function () { | ||
return __awaiter(this, void 0, void 0, function () { | ||
return __generator(this, function (_a) { | ||
return [2 /*return*/, []]; | ||
}); | ||
}); | ||
}; | ||
CSI.prototype.parseAuxData = function (bytes, offset, auxLength) { | ||
if (auxLength < 30) { | ||
return {}; | ||
} | ||
var data = {}; | ||
data.formatFlags = bytes.readInt32LE(offset); | ||
data.coordinateType = | ||
data.formatFlags & 0x10000 ? 'zero-based-half-open' : '1-based-closed'; | ||
data.format = { 0: 'generic', 1: 'SAM', 2: 'VCF' }[data.formatFlags & 0xf]; | ||
if (!data.format) { | ||
throw new Error("invalid Tabix preset format flags ".concat(data.formatFlags)); | ||
} | ||
data.columnNumbers = { | ||
ref: bytes.readInt32LE(offset + 4), | ||
start: bytes.readInt32LE(offset + 8), | ||
end: bytes.readInt32LE(offset + 12), | ||
}; | ||
data.metaValue = bytes.readInt32LE(offset + 16); | ||
data.metaChar = data.metaValue ? String.fromCharCode(data.metaValue) : ''; | ||
data.skipLines = bytes.readInt32LE(offset + 20); | ||
var nameSectionLength = bytes.readInt32LE(offset + 24); | ||
Object.assign(data, this._parseNameBytes(bytes.slice(offset + 28, offset + 28 + nameSectionLength))); | ||
return data; | ||
}; | ||
CSI.prototype._parseNameBytes = function (namesBytes) { | ||
var currRefId = 0; | ||
var currNameStart = 0; | ||
var refIdToName = []; | ||
var refNameToId = {}; | ||
for (var i = 0; i < namesBytes.length; i += 1) { | ||
if (!namesBytes[i]) { | ||
if (currNameStart < i) { | ||
var refName = namesBytes.toString('utf8', currNameStart, i); | ||
refName = this.renameRefSeq(refName); | ||
refIdToName[currRefId] = refName; | ||
refNameToId[refName] = currRefId; | ||
} | ||
return _context.abrupt("return", -1); | ||
case 8: | ||
stats = indexData.indices[refId].stats; | ||
if (!stats) { | ||
_context.next = 11; | ||
break; | ||
} | ||
return _context.abrupt("return", stats.lineCount); | ||
case 11: | ||
return _context.abrupt("return", -1); | ||
case 12: | ||
case "end": | ||
return _context.stop(); | ||
currNameStart = i + 1; | ||
currRefId += 1; | ||
} | ||
} | ||
}, _callee, this); | ||
})); | ||
function lineCount(_x) { | ||
return _lineCount.apply(this, arguments); | ||
} | ||
return lineCount; | ||
}() | ||
}, { | ||
key: "indexCov", | ||
value: function () { | ||
var _indexCov = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee2() { | ||
return _regenerator.default.wrap(function _callee2$(_context2) { | ||
while (1) { | ||
switch (_context2.prev = _context2.next) { | ||
case 0: | ||
return _context2.abrupt("return", []); | ||
case 1: | ||
case "end": | ||
return _context2.stop(); | ||
} | ||
} | ||
}, _callee2); | ||
})); | ||
function indexCov() { | ||
return _indexCov.apply(this, arguments); | ||
} | ||
return indexCov; | ||
}() | ||
}, { | ||
key: "parseAuxData", | ||
value: function parseAuxData(bytes, offset, auxLength) { | ||
if (auxLength < 30) { | ||
return {}; | ||
} | ||
var data = {}; | ||
data.formatFlags = bytes.readInt32LE(offset); | ||
data.coordinateType = data.formatFlags & 0x10000 ? 'zero-based-half-open' : '1-based-closed'; | ||
data.format = { | ||
0: 'generic', | ||
1: 'SAM', | ||
2: 'VCF' | ||
}[data.formatFlags & 0xf]; | ||
if (!data.format) { | ||
throw new Error("invalid Tabix preset format flags ".concat(data.formatFlags)); | ||
} | ||
data.columnNumbers = { | ||
ref: bytes.readInt32LE(offset + 4), | ||
start: bytes.readInt32LE(offset + 8), | ||
end: bytes.readInt32LE(offset + 12) | ||
}; | ||
data.metaValue = bytes.readInt32LE(offset + 16); | ||
data.metaChar = data.metaValue ? String.fromCharCode(data.metaValue) : ''; | ||
data.skipLines = bytes.readInt32LE(offset + 20); | ||
var nameSectionLength = bytes.readInt32LE(offset + 24); | ||
(0, _assign.default)(data, this._parseNameBytes((0, _slice.default)(bytes).call(bytes, offset + 28, offset + 28 + nameSectionLength))); | ||
return data; | ||
} | ||
}, { | ||
key: "_parseNameBytes", | ||
value: function _parseNameBytes(namesBytes) { | ||
var currRefId = 0; | ||
var currNameStart = 0; | ||
var refIdToName = []; | ||
var refNameToId = {}; | ||
for (var i = 0; i < namesBytes.length; i += 1) { | ||
if (!namesBytes[i]) { | ||
if (currNameStart < i) { | ||
var refName = namesBytes.toString('utf8', currNameStart, i); | ||
refName = this.renameRefSeq(refName); | ||
refIdToName[currRefId] = refName; | ||
refNameToId[refName] = currRefId; | ||
} | ||
currNameStart = i + 1; | ||
currRefId += 1; | ||
} | ||
} | ||
return { | ||
refNameToId: refNameToId, | ||
refIdToName: refIdToName | ||
}; | ||
} // fetch and parse the index | ||
}, { | ||
key: "_parse", | ||
value: function () { | ||
var _parse2 = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee3(opts) { | ||
var data, buffer, bytes, auxLength, currOffset, i, binCount, binIndex, stats, j, bin, loffset, chunkCount, chunks, k, u, v; | ||
return _regenerator.default.wrap(function _callee3$(_context3) { | ||
while (1) { | ||
switch (_context3.prev = _context3.next) { | ||
case 0: | ||
data = { | ||
csi: true, | ||
maxBlockSize: 1 << 16 | ||
}; | ||
_context3.next = 3; | ||
return this.filehandle.readFile(opts); | ||
case 3: | ||
buffer = _context3.sent; | ||
_context3.next = 6; | ||
return (0, _bgzfFilehandle.unzip)(buffer); | ||
case 6: | ||
bytes = _context3.sent; | ||
if (!(bytes.readUInt32LE(0) === CSI1_MAGIC)) { | ||
_context3.next = 11; | ||
break; | ||
return { refNameToId: refNameToId, refIdToName: refIdToName }; | ||
}; | ||
// fetch and parse the index | ||
CSI.prototype._parse = function (opts) { | ||
return __awaiter(this, void 0, void 0, function () { | ||
var data, buffer, bytes, auxLength, currOffset, i, binCount, binIndex, stats // < provided by parsing a pseudo-bin, if present | ||
, j, bin, loffset, chunkCount, chunks, k, u, v; | ||
return __generator(this, function (_a) { | ||
switch (_a.label) { | ||
case 0: | ||
data = { csi: true, maxBlockSize: 1 << 16 }; | ||
return [4 /*yield*/, this.filehandle.readFile(opts)]; | ||
case 1: | ||
buffer = (_a.sent()); | ||
return [4 /*yield*/, (0, bgzf_filehandle_1.unzip)(buffer) | ||
// check TBI magic numbers | ||
]; | ||
case 2: | ||
bytes = _a.sent(); | ||
// check TBI magic numbers | ||
if (bytes.readUInt32LE(0) === CSI1_MAGIC) { | ||
data.csiVersion = 1; | ||
} | ||
else if (bytes.readUInt32LE(0) === CSI2_MAGIC) { | ||
data.csiVersion = 2; | ||
} | ||
else { | ||
throw new Error('Not a CSI file'); | ||
// TODO: do we need to support big-endian CSI files? | ||
} | ||
this.minShift = bytes.readInt32LE(4); | ||
this.depth = bytes.readInt32LE(8); | ||
this.maxBinNumber = ((1 << ((this.depth + 1) * 3)) - 1) / 7; | ||
auxLength = bytes.readInt32LE(12); | ||
if (auxLength) { | ||
Object.assign(data, this.parseAuxData(bytes, 16, auxLength)); | ||
} | ||
data.refCount = bytes.readInt32LE(16 + auxLength); | ||
// read the indexes for each reference sequence | ||
data.indices = new Array(data.refCount); | ||
currOffset = 16 + auxLength + 4; | ||
i = 0; | ||
_a.label = 3; | ||
case 3: | ||
if (!(i < data.refCount)) return [3 /*break*/, 6]; | ||
return [4 /*yield*/, (0, util_1.abortBreakPoint)(opts.signal) | ||
// the binning index | ||
]; | ||
case 4: | ||
_a.sent(); | ||
binCount = bytes.readInt32LE(currOffset); | ||
currOffset += 4; | ||
binIndex = {}; | ||
stats = void 0; | ||
for (j = 0; j < binCount; j += 1) { | ||
bin = bytes.readUInt32LE(currOffset); | ||
if (bin > this.maxBinNumber) { | ||
// this is a fake bin that actually has stats information | ||
// about the reference sequence in it | ||
stats = this.parsePseudoBin(bytes, currOffset + 4); | ||
currOffset += 4 + 8 + 4 + 16 + 16; | ||
} | ||
else { | ||
loffset = (0, virtualOffset_1.fromBytes)(bytes, currOffset + 4); | ||
this._findFirstData(data, loffset); | ||
chunkCount = bytes.readInt32LE(currOffset + 12); | ||
currOffset += 16; | ||
chunks = new Array(chunkCount); | ||
for (k = 0; k < chunkCount; k += 1) { | ||
u = (0, virtualOffset_1.fromBytes)(bytes, currOffset); | ||
v = (0, virtualOffset_1.fromBytes)(bytes, currOffset + 8); | ||
currOffset += 16; | ||
// this._findFirstData(data, u) | ||
chunks[k] = new chunk_1.default(u, v, bin); | ||
} | ||
binIndex[bin] = chunks; | ||
} | ||
} | ||
data.indices[i] = { binIndex: binIndex, stats: stats }; | ||
_a.label = 5; | ||
case 5: | ||
i += 1; | ||
return [3 /*break*/, 3]; | ||
case 6: return [2 /*return*/, data]; | ||
} | ||
data.csiVersion = 1; | ||
_context3.next = 16; | ||
break; | ||
case 11: | ||
if (!(bytes.readUInt32LE(0) === CSI2_MAGIC)) { | ||
_context3.next = 15; | ||
break; | ||
} | ||
data.csiVersion = 2; | ||
_context3.next = 16; | ||
break; | ||
case 15: | ||
throw new Error('Not a CSI file'); | ||
case 16: | ||
this.minShift = bytes.readInt32LE(4); | ||
this.depth = bytes.readInt32LE(8); | ||
this.maxBinNumber = ((1 << (this.depth + 1) * 3) - 1) / 7; | ||
auxLength = bytes.readInt32LE(12); | ||
if (auxLength) { | ||
(0, _assign.default)(data, this.parseAuxData(bytes, 16, auxLength)); | ||
} | ||
data.refCount = bytes.readInt32LE(16 + auxLength); // read the indexes for each reference sequence | ||
data.indices = new Array(data.refCount); | ||
currOffset = 16 + auxLength + 4; | ||
i = 0; | ||
case 25: | ||
if (!(i < data.refCount)) { | ||
_context3.next = 37; | ||
break; | ||
} | ||
_context3.next = 28; | ||
return (0, _util.abortBreakPoint)(opts.signal); | ||
case 28: | ||
// the binning index | ||
binCount = bytes.readInt32LE(currOffset); | ||
currOffset += 4; | ||
binIndex = {}; | ||
stats = void 0; // < provided by parsing a pseudo-bin, if present | ||
for (j = 0; j < binCount; j += 1) { | ||
bin = bytes.readUInt32LE(currOffset); | ||
if (bin > this.maxBinNumber) { | ||
// this is a fake bin that actually has stats information | ||
// about the reference sequence in it | ||
stats = this.parsePseudoBin(bytes, currOffset + 4); | ||
currOffset += 4 + 8 + 4 + 16 + 16; | ||
} else { | ||
loffset = (0, _virtualOffset.fromBytes)(bytes, currOffset + 4); | ||
this._findFirstData(data, loffset); | ||
chunkCount = bytes.readInt32LE(currOffset + 12); | ||
currOffset += 16; | ||
chunks = new Array(chunkCount); | ||
for (k = 0; k < chunkCount; k += 1) { | ||
u = (0, _virtualOffset.fromBytes)(bytes, currOffset); | ||
v = (0, _virtualOffset.fromBytes)(bytes, currOffset + 8); | ||
currOffset += 16; // this._findFirstData(data, u) | ||
chunks[k] = new _chunk.default(u, v, bin); | ||
} | ||
binIndex[bin] = chunks; | ||
} | ||
} | ||
data.indices[i] = { | ||
binIndex: binIndex, | ||
stats: stats | ||
}; | ||
case 34: | ||
i += 1; | ||
_context3.next = 25; | ||
break; | ||
case 37: | ||
return _context3.abrupt("return", data); | ||
case 38: | ||
case "end": | ||
return _context3.stop(); | ||
} | ||
} | ||
}, _callee3, this); | ||
})); | ||
function _parse(_x2) { | ||
return _parse2.apply(this, arguments); | ||
} | ||
return _parse; | ||
}() | ||
}, { | ||
key: "parsePseudoBin", | ||
value: function parsePseudoBin(bytes, offset) { | ||
// const one = Long.fromBytesLE(bytes.slice(offset + 4, offset + 12), true) | ||
// const two = Long.fromBytesLE(bytes.slice(offset + 12, offset + 20), true) | ||
// const three = longToNumber( | ||
// Long.fromBytesLE(bytes.slice(offset + 20, offset + 28), true), | ||
// ) | ||
var lineCount = (0, _util.longToNumber)(_long.default.fromBytesLE((0, _slice.default)(Array.prototype).call(bytes, offset + 28, offset + 36), true)); | ||
return { | ||
lineCount: lineCount | ||
}; | ||
} | ||
}, { | ||
key: "blocksForRange", | ||
value: function () { | ||
var _blocksForRange = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee4(refId, min, max) { | ||
var opts, | ||
indexData, | ||
ba, | ||
overlappingBins, | ||
chunks, | ||
_iterator, | ||
_step, | ||
_step$value, | ||
start, | ||
end, | ||
bin, | ||
binChunks, | ||
c, | ||
_args4 = arguments; | ||
return _regenerator.default.wrap(function _callee4$(_context4) { | ||
while (1) { | ||
switch (_context4.prev = _context4.next) { | ||
case 0: | ||
opts = _args4.length > 3 && _args4[3] !== undefined ? _args4[3] : {}; | ||
if (min < 0) { | ||
min = 0; | ||
} | ||
_context4.next = 4; | ||
return this.parse(opts); | ||
case 4: | ||
indexData = _context4.sent; | ||
if (indexData) { | ||
_context4.next = 7; | ||
break; | ||
} | ||
return _context4.abrupt("return", []); | ||
case 7: | ||
ba = indexData.indices[refId]; | ||
if (ba) { | ||
_context4.next = 10; | ||
break; | ||
} | ||
return _context4.abrupt("return", []); | ||
case 10: | ||
overlappingBins = this.reg2bins(min, max); // List of bin #s that overlap min, max | ||
chunks = []; // Find chunks in overlapping bins. Leaf bins (< 4681) are not pruned | ||
_iterator = _createForOfIteratorHelper(overlappingBins); | ||
try { | ||
for (_iterator.s(); !(_step = _iterator.n()).done;) { | ||
_step$value = (0, _slicedToArray2.default)(_step.value, 2), start = _step$value[0], end = _step$value[1]; | ||
for (bin = start; bin <= end; bin++) { | ||
if (ba.binIndex[bin]) { | ||
binChunks = ba.binIndex[bin]; | ||
for (c = 0; c < binChunks.length; ++c) { | ||
chunks.push(new _chunk.default(binChunks[c].minv, binChunks[c].maxv, bin)); | ||
}); | ||
}); | ||
}; | ||
CSI.prototype.parsePseudoBin = function (bytes, offset) { | ||
// const one = Long.fromBytesLE(bytes.slice(offset + 4, offset + 12), true) | ||
// const two = Long.fromBytesLE(bytes.slice(offset + 12, offset + 20), true) | ||
// const three = longToNumber( | ||
// Long.fromBytesLE(bytes.slice(offset + 20, offset + 28), true), | ||
// ) | ||
var lineCount = (0, util_1.longToNumber)(long_1.default.fromBytesLE(Array.prototype.slice.call(bytes, offset + 28, offset + 36), true)); | ||
return { lineCount: lineCount }; | ||
}; | ||
CSI.prototype.blocksForRange = function (refId, min, max, opts) { | ||
if (opts === void 0) { opts = {}; } | ||
return __awaiter(this, void 0, void 0, function () { | ||
var indexData, ba, overlappingBins, chunks, _i, overlappingBins_1, _a, start, end, bin, binChunks, c; | ||
return __generator(this, function (_b) { | ||
switch (_b.label) { | ||
case 0: | ||
if (min < 0) { | ||
min = 0; | ||
} | ||
} | ||
} | ||
} | ||
} catch (err) { | ||
_iterator.e(err); | ||
} finally { | ||
_iterator.f(); | ||
return [4 /*yield*/, this.parse(opts)]; | ||
case 1: | ||
indexData = _b.sent(); | ||
if (!indexData) { | ||
return [2 /*return*/, []]; | ||
} | ||
ba = indexData.indices[refId]; | ||
if (!ba) { | ||
return [2 /*return*/, []]; | ||
} | ||
overlappingBins = this.reg2bins(min, max) // List of bin #s that overlap min, max | ||
; | ||
chunks = []; | ||
// Find chunks in overlapping bins. Leaf bins (< 4681) are not pruned | ||
for (_i = 0, overlappingBins_1 = overlappingBins; _i < overlappingBins_1.length; _i++) { | ||
_a = overlappingBins_1[_i], start = _a[0], end = _a[1]; | ||
for (bin = start; bin <= end; bin++) { | ||
if (ba.binIndex[bin]) { | ||
binChunks = ba.binIndex[bin]; | ||
for (c = 0; c < binChunks.length; ++c) { | ||
chunks.push(new chunk_1.default(binChunks[c].minv, binChunks[c].maxv, bin)); | ||
} | ||
} | ||
} | ||
} | ||
return [2 /*return*/, (0, util_1.optimizeChunks)(chunks, new virtualOffset_1.default(0, 0))]; | ||
} | ||
return _context4.abrupt("return", (0, _util.optimizeChunks)(chunks, new _virtualOffset.default(0, 0))); | ||
case 15: | ||
case "end": | ||
return _context4.stop(); | ||
} | ||
} | ||
}, _callee4, this); | ||
})); | ||
function blocksForRange(_x3, _x4, _x5) { | ||
return _blocksForRange.apply(this, arguments); | ||
} | ||
return blocksForRange; | ||
}() | ||
}); | ||
}); | ||
}; | ||
/** | ||
@@ -495,43 +312,28 @@ * calculate the list of bins that may overlap with region [beg,end) (zero-based half-open) | ||
*/ | ||
}, { | ||
key: "reg2bins", | ||
value: function reg2bins(beg, end) { | ||
beg -= 1; // < convert to 1-based closed | ||
if (beg < 1) { | ||
beg = 1; | ||
} | ||
if (end > Math.pow(2, 50)) { | ||
end = Math.pow(2, 34); | ||
} // 17 GiB ought to be enough for anybody | ||
end -= 1; | ||
var l = 0; | ||
var t = 0; | ||
var s = this.minShift + this.depth * 3; | ||
var bins = []; | ||
for (; l <= this.depth; s -= 3, t += lshift(1, l * 3), l += 1) { | ||
var b = t + rshift(beg, s); | ||
var e = t + rshift(end, s); | ||
if (e - b + bins.length > this.maxBinNumber) { | ||
var _context5, _context6, _context7; | ||
throw new Error((0, _concat.default)(_context5 = (0, _concat.default)(_context6 = (0, _concat.default)(_context7 = "query ".concat(beg, "-")).call(_context7, end, " is too large for current binning scheme (shift ")).call(_context6, this.minShift, ", depth ")).call(_context5, this.depth, "), try a smaller query or a coarser index binning scheme")); | ||
CSI.prototype.reg2bins = function (beg, end) { | ||
beg -= 1; // < convert to 1-based closed | ||
if (beg < 1) { | ||
beg = 1; | ||
} | ||
bins.push([b, e]); | ||
} | ||
return bins; | ||
} | ||
}]); | ||
return CSI; | ||
}(_indexFile.default); | ||
if (end > Math.pow(2, 50)) { | ||
end = Math.pow(2, 34); | ||
} // 17 GiB ought to be enough for anybody | ||
end -= 1; | ||
var l = 0; | ||
var t = 0; | ||
var s = this.minShift + this.depth * 3; | ||
var bins = []; | ||
for (; l <= this.depth; s -= 3, t += lshift(1, l * 3), l += 1) { | ||
var b = t + rshift(beg, s); | ||
var e = t + rshift(end, s); | ||
if (e - b + bins.length > this.maxBinNumber) { | ||
throw new Error("query ".concat(beg, "-").concat(end, " is too large for current binning scheme (shift ").concat(this.minShift, ", depth ").concat(this.depth, "), try a smaller query or a coarser index binning scheme")); | ||
} | ||
bins.push([b, e]); | ||
} | ||
return bins; | ||
}; | ||
return CSI; | ||
}(indexFile_1.default)); | ||
exports.default = CSI; | ||
//# sourceMappingURL=data:application/json;charset=utf-8;base64,{"version":3,"sources":["../src/csi.ts"],"names":["CSI1_MAGIC","CSI2_MAGIC","lshift","num","bits","rshift","Math","floor","CSI","args","maxBinNumber","depth","minShift","refId","parse","indexData","idx","indices","stats","lineCount","bytes","offset","auxLength","data","formatFlags","readInt32LE","coordinateType","format","Error","columnNumbers","ref","start","end","metaValue","metaChar","String","fromCharCode","skipLines","nameSectionLength","_parseNameBytes","namesBytes","currRefId","currNameStart","refIdToName","refNameToId","i","length","refName","toString","renameRefSeq","opts","csi","maxBlockSize","filehandle","readFile","buffer","readUInt32LE","csiVersion","parseAuxData","refCount","Array","currOffset","signal","binCount","binIndex","j","bin","parsePseudoBin","loffset","_findFirstData","chunkCount","chunks","k","u","v","Chunk","Long","fromBytesLE","prototype","call","min","max","ba","overlappingBins","reg2bins","binChunks","c","push","minv","maxv","VirtualOffset","beg","l","t","s","bins","b","e","IndexFile"],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA;;AACA;;AACA;;AACA;;AACA;;AAEA;;;;;;;;;;;;AAEA,IAAMA,UAAU,GAAG,QAAnB,C,CAA4B;;AAC5B,IAAMC,UAAU,GAAG,QAAnB,C,CAA4B;;AAE5B,SAASC,MAAT,CAAgBC,GAAhB,EAA6BC,IAA7B,EAA2C;AACzC,SAAOD,GAAG,YAAG,CAAH,EAAQC,IAAR,CAAV;AACD;;AACD,SAASC,MAAT,CAAgBF,GAAhB,EAA6BC,IAA7B,EAA2C;AACzC,SAAOE,IAAI,CAACC,KAAL,CAAWJ,GAAG,YAAG,CAAH,EAAQC,IAAR,CAAd,CAAP;AACD;;IAEoBI,G;;;;;AAInB,eAAYC,IAAZ,EAAuB;AAAA;;AAAA;AACrB,8BAAMA,IAAN;AADqB;AAAA;AAAA;AAErB,UAAKC,YAAL,GAAoB,CAApB;AACA,UAAKC,KAAL,GAAa,CAAb;AACA,UAAKC,QAAL,GAAgB,CAAhB;AAJqB;AAKtB;;;;;gHACeC,K;;;;;;;uBACU,KAAKC,KAAL,E;;;AAAlBC,gBAAAA,S;;oBACDA,S;;;;;iDACI,CAAC,C;;;AAEJC,gBAAAA,G,GAAMD,SAAS,CAACE,OAAV,CAAkBJ,KAAlB,C;;oBACPG,G;;;;;iDACI,CAAC,C;;;AAEFE,gBAAAA,K,GAAUH,SAAS,CAACE,OAAV,CAAkBJ,KAAlB,C,CAAVK,K;;qBACJA,K;;;;;iDACKA,KAAK,CAACC,S;;;iDAER,CAAC,C;;;;;;;;;;;;;;;;;;;;;;;;kDAID,E;;;;;;;;;;;;;;;;;;iCAGIC,K,EAAeC,M,EAAgBC,S,EAAmB;AAC7D,UAAIA,SAAS,GAAG,EAAhB,EAAoB;AAClB,eAAO,EAAP;AACD;;AAED,UAAMC,IAA4B,GAAG,EAArC;AACAA,MAAAA,IAAI,CAACC,WAAL,GAAmBJ,KAAK,CAACK,WAAN,CAAkBJ,MAAlB,CAAnB;AACAE,MAAAA,IAAI,CAACG,cAAL,GAAsBH,IAAI,CAACC,WAAL,GAAmB,OAAnB,GAA6B,sBAA7B,GAAsD,gBAA5E;AACAD,MAAAA,IAAI,CAACI,MAAL,GAAe;AAAE,WAAG,SAAL;AAAgB,WAAG,KAAnB;AAA0B,WAAG;AAA7B,OAAD,CACZJ,IAAI,CAACC,WAAL,GAAmB,GADP,CAAd;;AAGA,UAAI,CAACD,IAAI,CAACI,MAAV,EAAkB;AAChB,cAAM,IAAIC,KAAJ,6CAA+CL,IAAI,CAACC,WAApD,EAAN;AACD;;AACDD,MAAAA,IAAI,CAACM,aAAL,GAAqB;AACnBC,QAAAA,GAAG,EAAEV,KAAK,CAACK,WAAN,CAAkBJ,MAAM,GAAG,CAA3B,CADc;AAEnBU,QAAAA,KAAK,EAAEX,KAAK,CAACK,WAAN,CAAkBJ,MAAM,GAAG,CAA3B,CAFY;AAGnBW,QAAAA,GAAG,EAAEZ,KAAK,CAACK,WAAN,CAAkBJ,MAAM,GAAG,EAA3B;AAHc,OAArB;AAKAE,MAAAA,IAAI,CAACU,SAAL,GAAiBb,KAAK,CAACK,WAAN,CAAkBJ,MAAM,GAAG,EAA3B,CAAjB;AACAE,MAAAA,IAAI,CAACW,QAAL,GAAgBX,IAAI,CAACU,SAAL,GAAiBE,MAAM,CAACC,YAAP,CAAoBb,IAAI,CAACU,SAAzB,CAAjB,GAAuD,EAAvE;AACAV,MAAAA,IAAI,CAACc,SAAL,GAAiBjB,KAAK,CAACK,WAAN,CAAkBJ,MAAM,GAAG,EAA3B,CAAjB;AACA,UAAMiB,iBAAiB,GAAGlB,KAAK,CAACK,WAAN,CAAkBJ,MAAM,GAAG,EAA3B,CAA1B;AAEA,2BACEE,IADF,EAEE,KAAKgB,eAAL,CAAqB,oBAAAnB,KAAK,MAAL,CAAAA,KAAK,EAAOC,MAAM,GAAG,EAAhB,EAAoBA,MAAM,GAAG,EAAT,GAAciB,iBAAlC,CAA1B,CAFF;AAIA,aAAOf,IAAP;AACD;;;oCAEeiB,U,EAAoB;AAClC,UAAIC,SAAS,GAAG,CAAhB;AACA,UAAIC,aAAa,GAAG,CAApB;AACA,UAAMC,WAAW,GAAG,EAApB;AACA,UAAMC,WAAsC,GAAG,EAA/C;;AACA,WAAK,IAAIC,CAAC,GAAG,CAAb,EAAgBA,CAAC,GAAGL,UAAU,CAACM,MAA/B,EAAuCD,CAAC,IAAI,CAA5C,EAA+C;AAC7C,YAAI,CAACL,UAAU,CAACK,CAAD,CAAf,EAAoB;AAClB,cAAIH,aAAa,GAAGG,CAApB,EAAuB;AACrB,gBAAIE,OAAO,GAAGP,UAAU,CAACQ,QAAX,CAAoB,MAApB,EAA4BN,aAA5B,EAA2CG,CAA3C,CAAd;AACAE,YAAAA,OAAO,GAAG,KAAKE,YAAL,CAAkBF,OAAlB,CAAV;AACAJ,YAAAA,WAAW,CAACF,SAAD,CAAX,GAAyBM,OAAzB;AACAH,YAAAA,WAAW,CAACG,OAAD,CAAX,GAAuBN,SAAvB;AACD;;AACDC,UAAAA,aAAa,GAAGG,CAAC,GAAG,CAApB;AACAJ,UAAAA,SAAS,IAAI,CAAb;AACD;AACF;;AACD,aAAO;AAAEG,QAAAA,WAAW,EAAXA,WAAF;AAAeD,QAAAA,WAAW,EAAXA;AAAf,OAAP;AACD,K,CAED;;;;;8GACaO,I;;;;;;AACL3B,gBAAAA,I,GAA+B;AAAE4B,kBAAAA,GAAG,EAAE,IAAP;AAAaC,kBAAAA,YAAY,EAAE,KAAK;AAAhC,iB;;uBACf,KAAKC,UAAL,CAAgBC,QAAhB,CAAyBJ,IAAzB,C;;;AAAhBK,gBAAAA,M;;uBACc,2BAAMA,MAAN,C;;;AAAdnC,gBAAAA,K;;sBAGFA,KAAK,CAACoC,YAAN,CAAmB,CAAnB,MAA0BxD,U;;;;;AAC5BuB,gBAAAA,IAAI,CAACkC,UAAL,GAAkB,CAAlB;;;;;sBACSrC,KAAK,CAACoC,YAAN,CAAmB,CAAnB,MAA0BvD,U;;;;;AACnCsB,gBAAAA,IAAI,CAACkC,UAAL,GAAkB,CAAlB;;;;;sBAEM,IAAI7B,KAAJ,CAAU,gBAAV,C;;;AAIR,qBAAKhB,QAAL,GAAgBQ,KAAK,CAACK,WAAN,CAAkB,CAAlB,CAAhB;AACA,qBAAKd,KAAL,GAAaS,KAAK,CAACK,WAAN,CAAkB,CAAlB,CAAb;AACA,qBAAKf,YAAL,GAAoB,CAAC,CAAC,KAAM,CAAC,KAAKC,KAAL,GAAa,CAAd,IAAmB,CAA1B,IAAgC,CAAjC,IAAsC,CAA1D;AACMW,gBAAAA,S,GAAYF,KAAK,CAACK,WAAN,CAAkB,EAAlB,C;;AAClB,oBAAIH,SAAJ,EAAe;AACb,uCAAcC,IAAd,EAAoB,KAAKmC,YAAL,CAAkBtC,KAAlB,EAAyB,EAAzB,EAA6BE,SAA7B,CAApB;AACD;;AACDC,gBAAAA,IAAI,CAACoC,QAAL,GAAgBvC,KAAK,CAACK,WAAN,CAAkB,KAAKH,SAAvB,CAAhB,C,CAEA;;AACAC,gBAAAA,IAAI,CAACN,OAAL,GAAe,IAAI2C,KAAJ,CAAUrC,IAAI,CAACoC,QAAf,CAAf;AACIE,gBAAAA,U,GAAa,KAAKvC,SAAL,GAAiB,C;AACzBuB,gBAAAA,C,GAAI,C;;;sBAAGA,CAAC,GAAGtB,IAAI,CAACoC,Q;;;;;;uBACjB,2BAAgBT,IAAI,CAACY,MAArB,C;;;AACN;AACMC,gBAAAA,Q,GAAW3C,KAAK,CAACK,WAAN,CAAkBoC,UAAlB,C;AACjBA,gBAAAA,UAAU,IAAI,CAAd;AACMG,gBAAAA,Q,GAAuC,E;AACzC9C,gBAAAA,K,WAAM;;AACV,qBAAS+C,CAAT,GAAa,CAAb,EAAgBA,CAAC,GAAGF,QAApB,EAA8BE,CAAC,IAAI,CAAnC,EAAsC;AAC9BC,kBAAAA,GAD8B,GACxB9C,KAAK,CAACoC,YAAN,CAAmBK,UAAnB,CADwB;;AAEpC,sBAAIK,GAAG,GAAG,KAAKxD,YAAf,EAA6B;AAC3B;AACA;AACAQ,oBAAAA,KAAK,GAAG,KAAKiD,cAAL,CAAoB/C,KAApB,EAA2ByC,UAAU,GAAG,CAAxC,CAAR;AACAA,oBAAAA,UAAU,IAAI,IAAI,CAAJ,GAAQ,CAAR,GAAY,EAAZ,GAAiB,EAA/B;AACD,mBALD,MAKO;AACCO,oBAAAA,OADD,GACW,8BAAUhD,KAAV,EAAiByC,UAAU,GAAG,CAA9B,CADX;;AAEL,yBAAKQ,cAAL,CAAoB9C,IAApB,EAA0B6C,OAA1B;;AACME,oBAAAA,UAHD,GAGclD,KAAK,CAACK,WAAN,CAAkBoC,UAAU,GAAG,EAA/B,CAHd;AAILA,oBAAAA,UAAU,IAAI,EAAd;AACMU,oBAAAA,MALD,GAKU,IAAIX,KAAJ,CAAUU,UAAV,CALV;;AAML,yBAASE,CAAT,GAAa,CAAb,EAAgBA,CAAC,GAAGF,UAApB,EAAgCE,CAAC,IAAI,CAArC,EAAwC;AAChCC,sBAAAA,CADgC,GAC5B,8BAAUrD,KAAV,EAAiByC,UAAjB,CAD4B;AAEhCa,sBAAAA,CAFgC,GAE5B,8BAAUtD,KAAV,EAAiByC,UAAU,GAAG,CAA9B,CAF4B;AAGtCA,sBAAAA,UAAU,IAAI,EAAd,CAHsC,CAItC;;AACAU,sBAAAA,MAAM,CAACC,CAAD,CAAN,GAAY,IAAIG,cAAJ,CAAUF,CAAV,EAAaC,CAAb,EAAgBR,GAAhB,CAAZ;AACD;;AACDF,oBAAAA,QAAQ,CAACE,GAAD,CAAR,GAAgBK,MAAhB;AACD;AACF;;AAEDhD,gBAAAA,IAAI,CAACN,OAAL,CAAa4B,CAAb,IAAkB;AAAEmB,kBAAAA,QAAQ,EAARA,QAAF;AAAY9C,kBAAAA,KAAK,EAALA;AAAZ,iBAAlB;;;AA/BiC2B,gBAAAA,CAAC,IAAI,C;;;;;kDAkCjCtB,I;;;;;;;;;;;;;;;;;;mCAGMH,K,EAAeC,M,EAAgB;AAC5C;AACA;AACA;AACA;AACA;AACA,UAAMF,SAAS,GAAG,wBAChByD,cAAKC,WAAL,CAAiB,oBAAAjB,KAAK,CAACkB,SAAN,EAAsBC,IAAtB,CAA2B3D,KAA3B,EAAkCC,MAAM,GAAG,EAA3C,EAA+CA,MAAM,GAAG,EAAxD,CAAjB,EAA8E,IAA9E,CADgB,CAAlB;AAGA,aAAO;AAAEF,QAAAA,SAAS,EAATA;AAAF,OAAP;AACD;;;;sHAEoBN,K,EAAemE,G,EAAaC,G;;;;;;;;;;;;;;;;;;;;AAAa/B,gBAAAA,I,8DAAiB,E;;AAC7E,oBAAI8B,GAAG,GAAG,CAAV,EAAa;AACXA,kBAAAA,GAAG,GAAG,CAAN;AACD;;;uBAEuB,KAAKlE,KAAL,CAAWoC,IAAX,C;;;AAAlBnC,gBAAAA,S;;oBACDA,S;;;;;kDACI,E;;;AAEHmE,gBAAAA,E,GAAKnE,SAAS,CAACE,OAAV,CAAkBJ,KAAlB,C;;oBACNqE,E;;;;;kDACI,E;;;AAGHC,gBAAAA,e,GAAkB,KAAKC,QAAL,CAAcJ,GAAd,EAAmBC,GAAnB,C,EAAwB;;AAC1CV,gBAAAA,M,GAAkB,E,EAExB;;uDAC2BY,e;;;AAA3B,sEAA4C;AAAA,gFAAhCpD,KAAgC,mBAAzBC,GAAyB;;AAC1C,yBAASkC,GAAT,GAAenC,KAAf,EAAsBmC,GAAG,IAAIlC,GAA7B,EAAkCkC,GAAG,EAArC,EAAyC;AACvC,0BAAIgB,EAAE,CAAClB,QAAH,CAAYE,GAAZ,CAAJ,EAAsB;AACdmB,wBAAAA,SADc,GACFH,EAAE,CAAClB,QAAH,CAAYE,GAAZ,CADE;;AAEpB,6BAASoB,CAAT,GAAa,CAAb,EAAgBA,CAAC,GAAGD,SAAS,CAACvC,MAA9B,EAAsC,EAAEwC,CAAxC,EAA2C;AACzCf,0BAAAA,MAAM,CAACgB,IAAP,CAAY,IAAIZ,cAAJ,CAAUU,SAAS,CAACC,CAAD,CAAT,CAAaE,IAAvB,EAA6BH,SAAS,CAACC,CAAD,CAAT,CAAaG,IAA1C,EAAgDvB,GAAhD,CAAZ;AACD;AACF;AACF;AACF;;;;;;;kDAEM,0BAAeK,MAAf,EAAuB,IAAImB,sBAAJ,CAAkB,CAAlB,EAAqB,CAArB,CAAvB,C;;;;;;;;;;;;;;;;AAGT;;;;;;;6BAISC,G,EAAa3D,G,EAAa;AACjC2D,MAAAA,GAAG,IAAI,CAAP,CADiC,CACxB;;AACT,UAAIA,GAAG,GAAG,CAAV,EAAa;AACXA,QAAAA,GAAG,GAAG,CAAN;AACD;;AACD,UAAI3D,GAAG,YAAG,CAAH,EAAQ,EAAR,CAAP,EAAmB;AACjBA,QAAAA,GAAG,YAAG,CAAH,EAAQ,EAAR,CAAH;AACD,OAPgC,CAO/B;;;AACFA,MAAAA,GAAG,IAAI,CAAP;AACA,UAAI4D,CAAC,GAAG,CAAR;AACA,UAAIC,CAAC,GAAG,CAAR;AACA,UAAIC,CAAC,GAAG,KAAKlF,QAAL,GAAgB,KAAKD,KAAL,GAAa,CAArC;AACA,UAAMoF,IAAI,GAAG,EAAb;;AACA,aAAOH,CAAC,IAAI,KAAKjF,KAAjB,EAAwBmF,CAAC,IAAI,CAAL,EAAQD,CAAC,IAAI3F,MAAM,CAAC,CAAD,EAAI0F,CAAC,GAAG,CAAR,CAAnB,EAA+BA,CAAC,IAAI,CAA5D,EAA+D;AAC7D,YAAMI,CAAC,GAAGH,CAAC,GAAGxF,MAAM,CAACsF,GAAD,EAAMG,CAAN,CAApB;AACA,YAAMG,CAAC,GAAGJ,CAAC,GAAGxF,MAAM,CAAC2B,GAAD,EAAM8D,CAAN,CAApB;;AACA,YAAIG,CAAC,GAAGD,CAAJ,GAAQD,IAAI,CAACjD,MAAb,GAAsB,KAAKpC,YAA/B,EAA6C;AAAA;;AAC3C,gBAAM,IAAIkB,KAAJ,oHACK+D,GADL,wBACY3D,GADZ,uEACkE,KAAKpB,QADvE,+BAC0F,KAAKD,KAD/F,8DAAN;AAGD;;AACDoF,QAAAA,IAAI,CAACR,IAAL,CAAU,CAACS,CAAD,EAAIC,CAAJ,CAAV;AACD;;AACD,aAAOF,IAAP;AACD;;;EA1N8BG,kB","sourcesContent":["import Long from 'long'\nimport { unzip } from '@gmod/bgzf-filehandle'\nimport VirtualOffset, { fromBytes } from './virtualOffset'\nimport Chunk from './chunk'\nimport { longToNumber, abortBreakPoint, optimizeChunks, BaseOpts } from './util'\n\nimport IndexFile from './indexFile'\n\nconst CSI1_MAGIC = 21582659 // CSI\\1\nconst CSI2_MAGIC = 38359875 // CSI\\2\n\nfunction lshift(num: number, bits: number) {\n  return num * 2 ** bits\n}\nfunction rshift(num: number, bits: number) {\n  return Math.floor(num / 2 ** bits)\n}\n\nexport default class CSI extends IndexFile {\n  private maxBinNumber: number\n  private depth: number\n  private minShift: number\n  constructor(args: any) {\n    super(args)\n    this.maxBinNumber = 0\n    this.depth = 0\n    this.minShift = 0\n  }\n  async lineCount(refId: number): Promise<number> {\n    const indexData = await this.parse()\n    if (!indexData) {\n      return -1\n    }\n    const idx = indexData.indices[refId]\n    if (!idx) {\n      return -1\n    }\n    const { stats } = indexData.indices[refId]\n    if (stats) {\n      return stats.lineCount\n    }\n    return -1\n  }\n\n  async indexCov() {\n    return []\n  }\n\n  parseAuxData(bytes: Buffer, offset: number, auxLength: number) {\n    if (auxLength < 30) {\n      return {}\n    }\n\n    const data: { [key: string]: any } = {}\n    data.formatFlags = bytes.readInt32LE(offset)\n    data.coordinateType = data.formatFlags & 0x10000 ? 'zero-based-half-open' : '1-based-closed'\n    data.format = ({ 0: 'generic', 1: 'SAM', 2: 'VCF' } as { [key: number]: string })[\n      data.formatFlags & 0xf\n    ]\n    if (!data.format) {\n      throw new Error(`invalid Tabix preset format flags ${data.formatFlags}`)\n    }\n    data.columnNumbers = {\n      ref: bytes.readInt32LE(offset + 4),\n      start: bytes.readInt32LE(offset + 8),\n      end: bytes.readInt32LE(offset + 12),\n    }\n    data.metaValue = bytes.readInt32LE(offset + 16)\n    data.metaChar = data.metaValue ? String.fromCharCode(data.metaValue) : ''\n    data.skipLines = bytes.readInt32LE(offset + 20)\n    const nameSectionLength = bytes.readInt32LE(offset + 24)\n\n    Object.assign(\n      data,\n      this._parseNameBytes(bytes.slice(offset + 28, offset + 28 + nameSectionLength)),\n    )\n    return data\n  }\n\n  _parseNameBytes(namesBytes: Buffer) {\n    let currRefId = 0\n    let currNameStart = 0\n    const refIdToName = []\n    const refNameToId: { [key: string]: number } = {}\n    for (let i = 0; i < namesBytes.length; i += 1) {\n      if (!namesBytes[i]) {\n        if (currNameStart < i) {\n          let refName = namesBytes.toString('utf8', currNameStart, i)\n          refName = this.renameRefSeq(refName)\n          refIdToName[currRefId] = refName\n          refNameToId[refName] = currRefId\n        }\n        currNameStart = i + 1\n        currRefId += 1\n      }\n    }\n    return { refNameToId, refIdToName }\n  }\n\n  // fetch and parse the index\n  async _parse(opts: { signal?: AbortSignal }) {\n    const data: { [key: string]: any } = { csi: true, maxBlockSize: 1 << 16 }\n    const buffer = (await this.filehandle.readFile(opts)) as Buffer\n    const bytes = await unzip(buffer)\n\n    // check TBI magic numbers\n    if (bytes.readUInt32LE(0) === CSI1_MAGIC) {\n      data.csiVersion = 1\n    } else if (bytes.readUInt32LE(0) === CSI2_MAGIC) {\n      data.csiVersion = 2\n    } else {\n      throw new Error('Not a CSI file')\n      // TODO: do we need to support big-endian CSI files?\n    }\n\n    this.minShift = bytes.readInt32LE(4)\n    this.depth = bytes.readInt32LE(8)\n    this.maxBinNumber = ((1 << ((this.depth + 1) * 3)) - 1) / 7\n    const auxLength = bytes.readInt32LE(12)\n    if (auxLength) {\n      Object.assign(data, this.parseAuxData(bytes, 16, auxLength))\n    }\n    data.refCount = bytes.readInt32LE(16 + auxLength)\n\n    // read the indexes for each reference sequence\n    data.indices = new Array(data.refCount)\n    let currOffset = 16 + auxLength + 4\n    for (let i = 0; i < data.refCount; i += 1) {\n      await abortBreakPoint(opts.signal)\n      // the binning index\n      const binCount = bytes.readInt32LE(currOffset)\n      currOffset += 4\n      const binIndex: { [key: string]: Chunk[] } = {}\n      let stats // < provided by parsing a pseudo-bin, if present\n      for (let j = 0; j < binCount; j += 1) {\n        const bin = bytes.readUInt32LE(currOffset)\n        if (bin > this.maxBinNumber) {\n          // this is a fake bin that actually has stats information\n          // about the reference sequence in it\n          stats = this.parsePseudoBin(bytes, currOffset + 4)\n          currOffset += 4 + 8 + 4 + 16 + 16\n        } else {\n          const loffset = fromBytes(bytes, currOffset + 4)\n          this._findFirstData(data, loffset)\n          const chunkCount = bytes.readInt32LE(currOffset + 12)\n          currOffset += 16\n          const chunks = new Array(chunkCount)\n          for (let k = 0; k < chunkCount; k += 1) {\n            const u = fromBytes(bytes, currOffset)\n            const v = fromBytes(bytes, currOffset + 8)\n            currOffset += 16\n            // this._findFirstData(data, u)\n            chunks[k] = new Chunk(u, v, bin)\n          }\n          binIndex[bin] = chunks\n        }\n      }\n\n      data.indices[i] = { binIndex, stats }\n    }\n\n    return data\n  }\n\n  parsePseudoBin(bytes: Buffer, offset: number) {\n    // const one = Long.fromBytesLE(bytes.slice(offset + 4, offset + 12), true)\n    // const two = Long.fromBytesLE(bytes.slice(offset + 12, offset + 20), true)\n    // const three = longToNumber(\n    //   Long.fromBytesLE(bytes.slice(offset + 20, offset + 28), true),\n    // )\n    const lineCount = longToNumber(\n      Long.fromBytesLE(Array.prototype.slice.call(bytes, offset + 28, offset + 36), true),\n    )\n    return { lineCount }\n  }\n\n  async blocksForRange(refId: number, min: number, max: number, opts: BaseOpts = {}) {\n    if (min < 0) {\n      min = 0\n    }\n\n    const indexData = await this.parse(opts)\n    if (!indexData) {\n      return []\n    }\n    const ba = indexData.indices[refId]\n    if (!ba) {\n      return []\n    }\n\n    const overlappingBins = this.reg2bins(min, max) // List of bin #s that overlap min, max\n    const chunks: Chunk[] = []\n\n    // Find chunks in overlapping bins.  Leaf bins (< 4681) are not pruned\n    for (const [start, end] of overlappingBins) {\n      for (let bin = start; bin <= end; bin++) {\n        if (ba.binIndex[bin]) {\n          const binChunks = ba.binIndex[bin]\n          for (let c = 0; c < binChunks.length; ++c) {\n            chunks.push(new Chunk(binChunks[c].minv, binChunks[c].maxv, bin))\n          }\n        }\n      }\n    }\n\n    return optimizeChunks(chunks, new VirtualOffset(0, 0))\n  }\n\n  /**\n   * calculate the list of bins that may overlap with region [beg,end) (zero-based half-open)\n   * @returns {Array[number]}\n   */\n  reg2bins(beg: number, end: number) {\n    beg -= 1 // < convert to 1-based closed\n    if (beg < 1) {\n      beg = 1\n    }\n    if (end > 2 ** 50) {\n      end = 2 ** 34\n    } // 17 GiB ought to be enough for anybody\n    end -= 1\n    let l = 0\n    let t = 0\n    let s = this.minShift + this.depth * 3\n    const bins = []\n    for (; l <= this.depth; s -= 3, t += lshift(1, l * 3), l += 1) {\n      const b = t + rshift(beg, s)\n      const e = t + rshift(end, s)\n      if (e - b + bins.length > this.maxBinNumber) {\n        throw new Error(\n          `query ${beg}-${end} is too large for current binning scheme (shift ${this.minShift}, depth ${this.depth}), try a smaller query or a coarser index binning scheme`,\n        )\n      }\n      bins.push([b, e])\n    }\n    return bins\n  }\n}\n"]} | ||
//# sourceMappingURL=csi.js.map |
"use strict"; | ||
var _interopRequireDefault = require("@babel/runtime-corejs3/helpers/interopRequireDefault"); | ||
var _Object$defineProperty = require("@babel/runtime-corejs3/core-js-stable/object/define-property"); | ||
_Object$defineProperty(exports, "__esModule", { | ||
value: true | ||
}); | ||
var __extends = (this && this.__extends) || (function () { | ||
var extendStatics = function (d, b) { | ||
extendStatics = Object.setPrototypeOf || | ||
({ __proto__: [] } instanceof Array && function (d, b) { d.__proto__ = b; }) || | ||
function (d, b) { for (var p in b) if (Object.prototype.hasOwnProperty.call(b, p)) d[p] = b[p]; }; | ||
return extendStatics(d, b); | ||
}; | ||
return function (d, b) { | ||
if (typeof b !== "function" && b !== null) | ||
throw new TypeError("Class extends value " + String(b) + " is not a constructor or null"); | ||
extendStatics(d, b); | ||
function __() { this.constructor = d; } | ||
d.prototype = b === null ? Object.create(b) : (__.prototype = b.prototype, new __()); | ||
}; | ||
})(); | ||
Object.defineProperty(exports, "__esModule", { value: true }); | ||
exports.BamArgumentError = exports.BamSizeLimitError = exports.BamBufferOverrunError = exports.BamMalformedError = exports.BamUnimplementedError = exports.BamError = void 0; | ||
var _construct = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/reflect/construct")); | ||
var _classCallCheck2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/classCallCheck")); | ||
var _inherits2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/inherits")); | ||
var _possibleConstructorReturn2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/possibleConstructorReturn")); | ||
var _getPrototypeOf2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/getPrototypeOf")); | ||
var _wrapNativeSuper2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/wrapNativeSuper")); | ||
function _createSuper(Derived) { var hasNativeReflectConstruct = _isNativeReflectConstruct(); return function _createSuperInternal() { var Super = (0, _getPrototypeOf2.default)(Derived), result; if (hasNativeReflectConstruct) { var NewTarget = (0, _getPrototypeOf2.default)(this).constructor; result = (0, _construct.default)(Super, arguments, NewTarget); } else { result = Super.apply(this, arguments); } return (0, _possibleConstructorReturn2.default)(this, result); }; } | ||
function _isNativeReflectConstruct() { if (typeof Reflect === "undefined" || !_construct.default) return false; if (_construct.default.sham) return false; if (typeof Proxy === "function") return true; try { Date.prototype.toString.call((0, _construct.default)(Date, [], function () {})); return true; } catch (e) { return false; } } | ||
var BamError = /*#__PURE__*/function (_Error) { | ||
(0, _inherits2.default)(BamError, _Error); | ||
var _super = _createSuper(BamError); | ||
function BamError() { | ||
(0, _classCallCheck2.default)(this, BamError); | ||
return _super.apply(this, arguments); | ||
} | ||
return BamError; | ||
}( /*#__PURE__*/(0, _wrapNativeSuper2.default)(Error)); | ||
var BamError = /** @class */ (function (_super) { | ||
__extends(BamError, _super); | ||
function BamError() { | ||
return _super !== null && _super.apply(this, arguments) || this; | ||
} | ||
return BamError; | ||
}(Error)); | ||
exports.BamError = BamError; | ||
/** Error caused by encountering a part of the BAM spec that has not yet been implemented */ | ||
exports.BamError = BamError; | ||
var BamUnimplementedError = /*#__PURE__*/function (_Error2) { | ||
(0, _inherits2.default)(BamUnimplementedError, _Error2); | ||
var _super2 = _createSuper(BamUnimplementedError); | ||
function BamUnimplementedError() { | ||
(0, _classCallCheck2.default)(this, BamUnimplementedError); | ||
return _super2.apply(this, arguments); | ||
} | ||
return BamUnimplementedError; | ||
}( /*#__PURE__*/(0, _wrapNativeSuper2.default)(Error)); | ||
var BamUnimplementedError = /** @class */ (function (_super) { | ||
__extends(BamUnimplementedError, _super); | ||
function BamUnimplementedError() { | ||
return _super !== null && _super.apply(this, arguments) || this; | ||
} | ||
return BamUnimplementedError; | ||
}(Error)); | ||
exports.BamUnimplementedError = BamUnimplementedError; | ||
/** An error caused by malformed data. */ | ||
exports.BamUnimplementedError = BamUnimplementedError; | ||
var BamMalformedError = /*#__PURE__*/function (_BamError) { | ||
(0, _inherits2.default)(BamMalformedError, _BamError); | ||
var _super3 = _createSuper(BamMalformedError); | ||
function BamMalformedError() { | ||
(0, _classCallCheck2.default)(this, BamMalformedError); | ||
return _super3.apply(this, arguments); | ||
} | ||
return BamMalformedError; | ||
}(BamError); | ||
var BamMalformedError = /** @class */ (function (_super) { | ||
__extends(BamMalformedError, _super); | ||
function BamMalformedError() { | ||
return _super !== null && _super.apply(this, arguments) || this; | ||
} | ||
return BamMalformedError; | ||
}(BamError)); | ||
exports.BamMalformedError = BamMalformedError; | ||
/** | ||
* An error caused by attempting to read beyond the end of the defined data. | ||
*/ | ||
exports.BamMalformedError = BamMalformedError; | ||
var BamBufferOverrunError = /*#__PURE__*/function (_BamMalformedError) { | ||
(0, _inherits2.default)(BamBufferOverrunError, _BamMalformedError); | ||
var _super4 = _createSuper(BamBufferOverrunError); | ||
function BamBufferOverrunError() { | ||
(0, _classCallCheck2.default)(this, BamBufferOverrunError); | ||
return _super4.apply(this, arguments); | ||
} | ||
return BamBufferOverrunError; | ||
}(BamMalformedError); | ||
var BamBufferOverrunError = /** @class */ (function (_super) { | ||
__extends(BamBufferOverrunError, _super); | ||
function BamBufferOverrunError() { | ||
return _super !== null && _super.apply(this, arguments) || this; | ||
} | ||
return BamBufferOverrunError; | ||
}(BamMalformedError)); | ||
exports.BamBufferOverrunError = BamBufferOverrunError; | ||
/** | ||
* An error caused by data being too big, exceeding a size limit. | ||
*/ | ||
exports.BamBufferOverrunError = BamBufferOverrunError; | ||
var BamSizeLimitError = /*#__PURE__*/function (_BamError2) { | ||
(0, _inherits2.default)(BamSizeLimitError, _BamError2); | ||
var _super5 = _createSuper(BamSizeLimitError); | ||
function BamSizeLimitError() { | ||
(0, _classCallCheck2.default)(this, BamSizeLimitError); | ||
return _super5.apply(this, arguments); | ||
} | ||
return BamSizeLimitError; | ||
}(BamError); | ||
var BamSizeLimitError = /** @class */ (function (_super) { | ||
__extends(BamSizeLimitError, _super); | ||
function BamSizeLimitError() { | ||
return _super !== null && _super.apply(this, arguments) || this; | ||
} | ||
return BamSizeLimitError; | ||
}(BamError)); | ||
exports.BamSizeLimitError = BamSizeLimitError; | ||
/** | ||
* An invalid argument was supplied to a bam-js method or object. | ||
*/ | ||
exports.BamSizeLimitError = BamSizeLimitError; | ||
var BamArgumentError = /*#__PURE__*/function (_BamError3) { | ||
(0, _inherits2.default)(BamArgumentError, _BamError3); | ||
var _super6 = _createSuper(BamArgumentError); | ||
function BamArgumentError() { | ||
(0, _classCallCheck2.default)(this, BamArgumentError); | ||
return _super6.apply(this, arguments); | ||
} | ||
return BamArgumentError; | ||
}(BamError); | ||
var BamArgumentError = /** @class */ (function (_super) { | ||
__extends(BamArgumentError, _super); | ||
function BamArgumentError() { | ||
return _super !== null && _super.apply(this, arguments) || this; | ||
} | ||
return BamArgumentError; | ||
}(BamError)); | ||
exports.BamArgumentError = BamArgumentError; | ||
//# sourceMappingURL=data:application/json;charset=utf-8;base64,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 | ||
//# sourceMappingURL=errors.js.map |
"use strict"; | ||
var _interopRequireWildcard = require("@babel/runtime-corejs3/helpers/interopRequireWildcard"); | ||
var _interopRequireDefault = require("@babel/runtime-corejs3/helpers/interopRequireDefault"); | ||
var _Object$defineProperty2 = require("@babel/runtime-corejs3/core-js-stable/object/define-property"); | ||
_Object$defineProperty2(exports, "__esModule", { | ||
value: true | ||
var __extends = (this && this.__extends) || (function () { | ||
var extendStatics = function (d, b) { | ||
extendStatics = Object.setPrototypeOf || | ||
({ __proto__: [] } instanceof Array && function (d, b) { d.__proto__ = b; }) || | ||
function (d, b) { for (var p in b) if (Object.prototype.hasOwnProperty.call(b, p)) d[p] = b[p]; }; | ||
return extendStatics(d, b); | ||
}; | ||
return function (d, b) { | ||
if (typeof b !== "function" && b !== null) | ||
throw new TypeError("Class extends value " + String(b) + " is not a constructor or null"); | ||
extendStatics(d, b); | ||
function __() { this.constructor = d; } | ||
d.prototype = b === null ? Object.create(b) : (__.prototype = b.prototype, new __()); | ||
}; | ||
})(); | ||
var __assign = (this && this.__assign) || function () { | ||
__assign = Object.assign || function(t) { | ||
for (var s, i = 1, n = arguments.length; i < n; i++) { | ||
s = arguments[i]; | ||
for (var p in s) if (Object.prototype.hasOwnProperty.call(s, p)) | ||
t[p] = s[p]; | ||
} | ||
return t; | ||
}; | ||
return __assign.apply(this, arguments); | ||
}; | ||
var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) { | ||
if (k2 === undefined) k2 = k; | ||
Object.defineProperty(o, k2, { enumerable: true, get: function() { return m[k]; } }); | ||
}) : (function(o, m, k, k2) { | ||
if (k2 === undefined) k2 = k; | ||
o[k2] = m[k]; | ||
})); | ||
var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) { | ||
Object.defineProperty(o, "default", { enumerable: true, value: v }); | ||
}) : function(o, v) { | ||
o["default"] = v; | ||
}); | ||
exports.default = void 0; | ||
var _objectWithoutProperties2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/objectWithoutProperties")); | ||
var _startsWith = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/starts-with")); | ||
var _map = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/map")); | ||
var _promise = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/promise")); | ||
var _defineProperty2 = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/object/define-property")); | ||
var _defineProperties = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/object/define-properties")); | ||
var _getOwnPropertyDescriptors = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/object/get-own-property-descriptors")); | ||
var _getOwnPropertyDescriptor = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/object/get-own-property-descriptor")); | ||
var _getOwnPropertySymbols = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/object/get-own-property-symbols")); | ||
var _keys = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/object/keys")); | ||
var _construct = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/reflect/construct")); | ||
var _forEach = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/for-each")); | ||
var _filter = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/filter")); | ||
var _regenerator = _interopRequireDefault(require("@babel/runtime-corejs3/regenerator")); | ||
var _slice = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/slice")); | ||
var _concat2 = _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 _assertThisInitialized2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/assertThisInitialized")); | ||
var _inherits2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/inherits")); | ||
var _possibleConstructorReturn2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/possibleConstructorReturn")); | ||
var _getPrototypeOf2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/getPrototypeOf")); | ||
var _defineProperty3 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/defineProperty")); | ||
var _asyncToGenerator2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/asyncToGenerator")); | ||
var _wrapAsyncGenerator2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/wrapAsyncGenerator")); | ||
var _awaitAsyncGenerator2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/awaitAsyncGenerator")); | ||
var _asyncIterator2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/asyncIterator")); | ||
var _asyncGeneratorDelegate2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/asyncGeneratorDelegate")); | ||
var _bamFile = _interopRequireWildcard(require("./bamFile")); | ||
var __importStar = (this && this.__importStar) || function (mod) { | ||
if (mod && mod.__esModule) return mod; | ||
var result = {}; | ||
if (mod != null) for (var k in mod) if (k !== "default" && Object.prototype.hasOwnProperty.call(mod, k)) __createBinding(result, mod, k); | ||
__setModuleDefault(result, mod); | ||
return result; | ||
}; | ||
var __awaiter = (this && this.__awaiter) || function (thisArg, _arguments, P, generator) { | ||
function adopt(value) { return value instanceof P ? value : new P(function (resolve) { resolve(value); }); } | ||
return new (P || (P = Promise))(function (resolve, reject) { | ||
function fulfilled(value) { try { step(generator.next(value)); } catch (e) { reject(e); } } | ||
function rejected(value) { try { step(generator["throw"](value)); } catch (e) { reject(e); } } | ||
function step(result) { result.done ? resolve(result.value) : adopt(result.value).then(fulfilled, rejected); } | ||
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 }; | ||
} | ||
}; | ||
var __rest = (this && this.__rest) || function (s, e) { | ||
var t = {}; | ||
for (var p in s) if (Object.prototype.hasOwnProperty.call(s, p) && e.indexOf(p) < 0) | ||
t[p] = s[p]; | ||
if (s != null && typeof Object.getOwnPropertySymbols === "function") | ||
for (var i = 0, p = Object.getOwnPropertySymbols(s); i < p.length; i++) { | ||
if (e.indexOf(p[i]) < 0 && Object.prototype.propertyIsEnumerable.call(s, p[i])) | ||
t[p[i]] = s[p[i]]; | ||
} | ||
return t; | ||
}; | ||
var __await = (this && this.__await) || function (v) { return this instanceof __await ? (this.v = v, this) : new __await(v); } | ||
var __asyncValues = (this && this.__asyncValues) || function (o) { | ||
if (!Symbol.asyncIterator) throw new TypeError("Symbol.asyncIterator is not defined."); | ||
var m = o[Symbol.asyncIterator], i; | ||
return m ? m.call(o) : (o = typeof __values === "function" ? __values(o) : o[Symbol.iterator](), i = {}, verb("next"), verb("throw"), verb("return"), i[Symbol.asyncIterator] = function () { return this; }, i); | ||
function verb(n) { i[n] = o[n] && function (v) { return new Promise(function (resolve, reject) { v = o[n](v), settle(resolve, reject, v.done, v.value); }); }; } | ||
function settle(resolve, reject, d, v) { Promise.resolve(v).then(function(v) { resolve({ value: v, done: d }); }, reject); } | ||
}; | ||
var __asyncDelegator = (this && this.__asyncDelegator) || function (o) { | ||
var i, p; | ||
return i = {}, verb("next"), verb("throw", function (e) { throw e; }), verb("return"), i[Symbol.iterator] = function () { return this; }, i; | ||
function verb(n, f) { i[n] = o[n] ? function (v) { return (p = !p) ? { value: __await(o[n](v)), done: n === "return" } : f ? f(v) : v; } : f; } | ||
}; | ||
var __asyncGenerator = (this && this.__asyncGenerator) || function (thisArg, _arguments, generator) { | ||
if (!Symbol.asyncIterator) throw new TypeError("Symbol.asyncIterator is not defined."); | ||
var g = generator.apply(thisArg, _arguments || []), i, q = []; | ||
return i = {}, verb("next"), verb("throw"), verb("return"), i[Symbol.asyncIterator] = function () { return this; }, i; | ||
function verb(n) { if (g[n]) i[n] = function (v) { return new Promise(function (a, b) { q.push([n, v, a, b]) > 1 || resume(n, v); }); }; } | ||
function resume(n, v) { try { step(g[n](v)); } catch (e) { settle(q[0][3], e); } } | ||
function step(r) { r.value instanceof __await ? Promise.resolve(r.value.v).then(fulfill, reject) : settle(q[0][2], r); } | ||
function fulfill(value) { resume("next", value); } | ||
function reject(value) { resume("throw", value); } | ||
function settle(f, v) { if (f(v), q.shift(), q.length) resume(q[0][0], q[0][1]); } | ||
}; | ||
var __values = (this && this.__values) || function(o) { | ||
var s = typeof Symbol === "function" && Symbol.iterator, m = s && o[s], i = 0; | ||
if (m) return m.call(o); | ||
if (o && typeof o.length === "number") return { | ||
next: function () { | ||
if (o && i >= o.length) o = void 0; | ||
return { value: o && o[i++], done: !o }; | ||
} | ||
}; | ||
throw new TypeError(s ? "Object is not iterable." : "Symbol.iterator is not defined."); | ||
}; | ||
Object.defineProperty(exports, "__esModule", { value: true }); | ||
var bamFile_1 = __importStar(require("./bamFile")); | ||
require("cross-fetch/polyfill"); | ||
var _bgzfFilehandle = require("@gmod/bgzf-filehandle"); | ||
var _sam = require("./sam"); | ||
function ownKeys(object, enumerableOnly) { var keys = (0, _keys.default)(object); if (_getOwnPropertySymbols.default) { var symbols = (0, _getOwnPropertySymbols.default)(object); if (enumerableOnly) symbols = (0, _filter.default)(symbols).call(symbols, function (sym) { return (0, _getOwnPropertyDescriptor.default)(object, sym).enumerable; }); keys.push.apply(keys, symbols); } return keys; } | ||
function _objectSpread(target) { for (var i = 1; i < arguments.length; i++) { var source = arguments[i] != null ? arguments[i] : {}; if (i % 2) { var _context13; (0, _forEach.default)(_context13 = ownKeys(Object(source), true)).call(_context13, function (key) { (0, _defineProperty3.default)(target, key, source[key]); }); } else if (_getOwnPropertyDescriptors.default) { (0, _defineProperties.default)(target, (0, _getOwnPropertyDescriptors.default)(source)); } else { var _context14; (0, _forEach.default)(_context14 = ownKeys(Object(source))).call(_context14, function (key) { (0, _defineProperty2.default)(target, key, (0, _getOwnPropertyDescriptor.default)(source, key)); }); } } return target; } | ||
function _createSuper(Derived) { var hasNativeReflectConstruct = _isNativeReflectConstruct(); return function _createSuperInternal() { var Super = (0, _getPrototypeOf2.default)(Derived), result; if (hasNativeReflectConstruct) { var NewTarget = (0, _getPrototypeOf2.default)(this).constructor; result = (0, _construct.default)(Super, arguments, NewTarget); } else { result = Super.apply(this, arguments); } return (0, _possibleConstructorReturn2.default)(this, result); }; } | ||
function _isNativeReflectConstruct() { if (typeof Reflect === "undefined" || !_construct.default) return false; if (_construct.default.sham) return false; if (typeof Proxy === "function") return true; try { Date.prototype.toString.call((0, _construct.default)(Date, [], function () {})); return true; } catch (e) { return false; } } | ||
function concat(_x, _x2) { | ||
return _concat.apply(this, arguments); | ||
var bgzf_filehandle_1 = require("@gmod/bgzf-filehandle"); | ||
var sam_1 = require("./sam"); | ||
function concat(arr, opts) { | ||
return __awaiter(this, void 0, void 0, function () { | ||
var res, _a, _b; | ||
var _this = this; | ||
return __generator(this, function (_c) { | ||
switch (_c.label) { | ||
case 0: return [4 /*yield*/, Promise.all(arr.map(function (chunk) { return __awaiter(_this, void 0, void 0, function () { | ||
var url, headers, referer, rest, res_1, _a, _b; | ||
return __generator(this, function (_c) { | ||
switch (_c.label) { | ||
case 0: | ||
url = chunk.url, headers = chunk.headers; | ||
if (!url.startsWith('data:')) return [3 /*break*/, 1]; | ||
return [2 /*return*/, Buffer.from(url.split(',')[1], 'base64')]; | ||
case 1: | ||
referer = headers.referer, rest = __rest(headers, ["referer"]); | ||
return [4 /*yield*/, fetch(url, __assign(__assign({}, opts), { headers: __assign(__assign({}, opts.headers), rest) }))]; | ||
case 2: | ||
res_1 = _c.sent(); | ||
if (!res_1.ok) { | ||
throw new Error("Failed to fetch ".concat(res_1.statusText)); | ||
} | ||
_b = (_a = Buffer).from; | ||
return [4 /*yield*/, res_1.arrayBuffer()]; | ||
case 3: return [2 /*return*/, _b.apply(_a, [_c.sent()])]; | ||
} | ||
}); | ||
}); }))]; | ||
case 1: | ||
res = _c.sent(); | ||
_b = (_a = Buffer).concat; | ||
return [4 /*yield*/, Promise.all(res.map(function (elt) { return (0, bgzf_filehandle_1.unzip)(elt); }))]; | ||
case 2: return [2 /*return*/, _b.apply(_a, [_c.sent()])]; | ||
} | ||
}); | ||
}); | ||
} | ||
function _concat() { | ||
_concat = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee5(arr, opts) { | ||
var res; | ||
return _regenerator.default.wrap(function _callee5$(_context16) { | ||
while (1) { | ||
switch (_context16.prev = _context16.next) { | ||
case 0: | ||
_context16.next = 2; | ||
return _promise.default.all((0, _map.default)(arr).call(arr, /*#__PURE__*/function () { | ||
var _ref = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee4(chunk) { | ||
var url, headers, referer, rest, _res; | ||
return _regenerator.default.wrap(function _callee4$(_context15) { | ||
while (1) { | ||
switch (_context15.prev = _context15.next) { | ||
case 0: | ||
url = chunk.url, headers = chunk.headers; | ||
if (!(0, _startsWith.default)(url).call(url, 'data:')) { | ||
_context15.next = 5; | ||
break; | ||
var HtsgetFile = /** @class */ (function (_super) { | ||
__extends(HtsgetFile, _super); | ||
function HtsgetFile(args) { | ||
var _this = | ||
// @ts-ignore override bam defaults | ||
_super.call(this, { bamFilehandle: '?', baiFilehandle: '?' }) || this; | ||
_this.baseUrl = args.baseUrl; | ||
_this.trackId = args.trackId; | ||
return _this; | ||
} | ||
HtsgetFile.prototype.streamRecordsForRange = function (chr, min, max, opts) { | ||
if (opts === void 0) { opts = { | ||
viewAsPairs: false, | ||
pairAcrossChr: false, | ||
maxInsertSize: 200000, | ||
}; } | ||
return __asyncGenerator(this, arguments, function streamRecordsForRange_1() { | ||
var base, url, chrId, result, data, uncba, chunk; | ||
return __generator(this, function (_a) { | ||
switch (_a.label) { | ||
case 0: | ||
base = "".concat(this.baseUrl, "/").concat(this.trackId); | ||
url = "".concat(base, "?referenceName=").concat(chr, "&start=").concat(min, "&end=").concat(max, "&format=BAM"); | ||
chrId = this.chrToIndex && this.chrToIndex[chr]; | ||
return [4 /*yield*/, __await(fetch(url, __assign({}, opts)))]; | ||
case 1: | ||
result = _a.sent(); | ||
if (!result.ok) { | ||
throw new Error(result.statusText); | ||
} | ||
return _context15.abrupt("return", Buffer.from(url.split(',')[1], 'base64')); | ||
case 5: | ||
//remove referer header, it is not even allowed to be specified | ||
//@ts-ignore | ||
//eslint-disable-next-line @typescript-eslint/no-unused-vars | ||
referer = headers.referer, rest = (0, _objectWithoutProperties2.default)(headers, ["referer"]); | ||
_context15.next = 8; | ||
return fetch(url, _objectSpread(_objectSpread({}, opts), {}, { | ||
headers: _objectSpread(_objectSpread({}, opts.headers), rest) | ||
})); | ||
case 8: | ||
_res = _context15.sent; | ||
if (_res.ok) { | ||
_context15.next = 11; | ||
break; | ||
} | ||
throw new Error("Failed to fetch ".concat(_res.statusText)); | ||
case 11: | ||
_context15.t0 = Buffer; | ||
_context15.next = 14; | ||
return _res.arrayBuffer(); | ||
case 14: | ||
_context15.t1 = _context15.sent; | ||
return _context15.abrupt("return", _context15.t0.from.call(_context15.t0, _context15.t1)); | ||
case 16: | ||
case "end": | ||
return _context15.stop(); | ||
} | ||
} | ||
}, _callee4); | ||
})); | ||
return function (_x4) { | ||
return _ref.apply(this, arguments); | ||
}; | ||
}())); | ||
case 2: | ||
res = _context16.sent; | ||
_context16.t0 = (0, _concat2.default)(Buffer); | ||
_context16.t1 = Buffer; | ||
_context16.next = 7; | ||
return _promise.default.all((0, _map.default)(res).call(res, function (elt) { | ||
return (0, _bgzfFilehandle.unzip)(elt); | ||
})); | ||
case 7: | ||
_context16.t2 = _context16.sent; | ||
return _context16.abrupt("return", _context16.t0.call.call(_context16.t0, _context16.t1, _context16.t2)); | ||
case 9: | ||
case "end": | ||
return _context16.stop(); | ||
} | ||
} | ||
}, _callee5); | ||
})); | ||
return _concat.apply(this, arguments); | ||
} | ||
var HtsgetFile = /*#__PURE__*/function (_BamFile) { | ||
(0, _inherits2.default)(HtsgetFile, _BamFile); | ||
var _super = _createSuper(HtsgetFile); | ||
function HtsgetFile(args) { | ||
var _this2; | ||
(0, _classCallCheck2.default)(this, HtsgetFile); | ||
// @ts-ignore override bam defaults | ||
_this2 = _super.call(this, { | ||
bamFilehandle: '?', | ||
baiFilehandle: '?' | ||
}); | ||
(0, _defineProperty3.default)((0, _assertThisInitialized2.default)(_this2), "baseUrl", void 0); | ||
(0, _defineProperty3.default)((0, _assertThisInitialized2.default)(_this2), "trackId", void 0); | ||
_this2.baseUrl = args.baseUrl; | ||
_this2.trackId = args.trackId; | ||
return _this2; | ||
} | ||
(0, _createClass2.default)(HtsgetFile, [{ | ||
key: "streamRecordsForRange", | ||
value: function streamRecordsForRange(chr, min, max) { | ||
var _this = this; | ||
var opts = arguments.length > 3 && arguments[3] !== undefined ? arguments[3] : { | ||
viewAsPairs: false, | ||
pairAcrossChr: false, | ||
maxInsertSize: 200000 | ||
}; | ||
return (0, _wrapAsyncGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee() { | ||
var _context, _context2, _context3, _context4, _context5; | ||
var base, url, chrId, result, data, uncba, chunk; | ||
return _regenerator.default.wrap(function _callee$(_context8) { | ||
while (1) { | ||
switch (_context8.prev = _context8.next) { | ||
case 0: | ||
base = (0, _concat2.default)(_context = "".concat(_this.baseUrl, "/")).call(_context, _this.trackId); | ||
url = (0, _concat2.default)(_context2 = (0, _concat2.default)(_context3 = (0, _concat2.default)(_context4 = "".concat(base, "?referenceName=")).call(_context4, chr, "&start=")).call(_context3, min, "&end=")).call(_context2, max, "&format=BAM"); | ||
chrId = _this.chrToIndex && _this.chrToIndex[chr]; | ||
_context8.next = 5; | ||
return (0, _awaitAsyncGenerator2.default)(fetch(url, _objectSpread({}, opts))); | ||
case 5: | ||
result = _context8.sent; | ||
if (result.ok) { | ||
_context8.next = 8; | ||
break; | ||
return [4 /*yield*/, __await(result.json())]; | ||
case 2: | ||
data = _a.sent(); | ||
return [4 /*yield*/, __await(concat(data.htsget.urls.slice(1), opts))]; | ||
case 3: | ||
uncba = _a.sent(); | ||
chunk = { | ||
buffer: uncba, | ||
chunk: { minv: { dataPosition: 0 } }, | ||
toString: function () { | ||
return "".concat(chr, "_").concat(min, "_").concat(max); | ||
}, | ||
}; | ||
return [5 /*yield**/, __values(__asyncDelegator(__asyncValues(this._fetchChunkFeatures( | ||
// @ts-ignore | ||
[chunk], chrId, min, max, opts))))]; | ||
case 4: return [4 /*yield*/, __await.apply(void 0, [_a.sent()])]; | ||
case 5: | ||
_a.sent(); | ||
return [2 /*return*/]; | ||
} | ||
throw new Error(result.statusText); | ||
case 8: | ||
_context8.next = 10; | ||
return (0, _awaitAsyncGenerator2.default)(result.json()); | ||
case 10: | ||
data = _context8.sent; | ||
_context8.next = 13; | ||
return (0, _awaitAsyncGenerator2.default)(concat((0, _slice.default)(_context5 = data.htsget.urls).call(_context5, 1), opts)); | ||
case 13: | ||
uncba = _context8.sent; | ||
chunk = { | ||
buffer: uncba, | ||
chunk: { | ||
minv: { | ||
dataPosition: 0 | ||
} | ||
}, | ||
toString: function toString() { | ||
var _context6, _context7; | ||
return (0, _concat2.default)(_context6 = (0, _concat2.default)(_context7 = "".concat(chr, "_")).call(_context7, min, "_")).call(_context6, max); | ||
} | ||
}; | ||
return _context8.delegateYield((0, _asyncGeneratorDelegate2.default)((0, _asyncIterator2.default)(_this._fetchChunkFeatures( // @ts-ignore | ||
[chunk], chrId, min, max, opts)), _awaitAsyncGenerator2.default), "t0", 16); | ||
case 16: | ||
case "end": | ||
return _context8.stop(); | ||
} | ||
} | ||
}, _callee); | ||
}))(); | ||
} //@ts-ignore | ||
}, { | ||
key: "_readChunk", | ||
value: function () { | ||
var _readChunk2 = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee2(params) { | ||
var chunk, buffer, c2; | ||
return _regenerator.default.wrap(function _callee2$(_context9) { | ||
while (1) { | ||
switch (_context9.prev = _context9.next) { | ||
case 0: | ||
}); | ||
}); | ||
}; | ||
//@ts-ignore | ||
HtsgetFile.prototype._readChunk = function (params) { | ||
return __awaiter(this, void 0, void 0, function () { | ||
var chunk, buffer, c2; | ||
return __generator(this, function (_a) { | ||
chunk = params.chunk; | ||
buffer = chunk.buffer, c2 = chunk.chunk; | ||
return _context9.abrupt("return", { | ||
data: buffer, | ||
cpositions: null, | ||
dpositions: null, | ||
chunk: c2 | ||
}); | ||
case 3: | ||
case "end": | ||
return _context9.stop(); | ||
} | ||
} | ||
}, _callee2); | ||
})); | ||
function _readChunk(_x3) { | ||
return _readChunk2.apply(this, arguments); | ||
} | ||
return _readChunk; | ||
}() | ||
}, { | ||
key: "getHeader", | ||
value: function () { | ||
var _getHeader = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee3() { | ||
var _context10; | ||
var opts, | ||
url, | ||
result, | ||
data, | ||
uncba, | ||
headLen, | ||
headerText, | ||
samHeader, | ||
idToName, | ||
nameToId, | ||
sqLines, | ||
_args3 = arguments; | ||
return _regenerator.default.wrap(function _callee3$(_context12) { | ||
while (1) { | ||
switch (_context12.prev = _context12.next) { | ||
case 0: | ||
opts = _args3.length > 0 && _args3[0] !== undefined ? _args3[0] : {}; | ||
url = (0, _concat2.default)(_context10 = "".concat(this.baseUrl, "/")).call(_context10, this.trackId, "?referenceName=na&class=header"); | ||
_context12.next = 4; | ||
return fetch(url, opts); | ||
case 4: | ||
result = _context12.sent; | ||
if (result.ok) { | ||
_context12.next = 7; | ||
break; | ||
return [2 /*return*/, { data: buffer, cpositions: null, dpositions: null, chunk: c2 }]; | ||
}); | ||
}); | ||
}; | ||
HtsgetFile.prototype.getHeader = function (opts) { | ||
if (opts === void 0) { opts = {}; } | ||
return __awaiter(this, void 0, void 0, function () { | ||
var url, result, data, uncba, headLen, headerText, samHeader, idToName, nameToId, sqLines; | ||
return __generator(this, function (_a) { | ||
switch (_a.label) { | ||
case 0: | ||
url = "".concat(this.baseUrl, "/").concat(this.trackId, "?referenceName=na&class=header"); | ||
return [4 /*yield*/, fetch(url, opts)]; | ||
case 1: | ||
result = _a.sent(); | ||
if (!result.ok) { | ||
throw new Error("Failed to fetch ".concat(result.statusText)); | ||
} | ||
return [4 /*yield*/, result.json()]; | ||
case 2: | ||
data = _a.sent(); | ||
return [4 /*yield*/, concat(data.htsget.urls, opts)]; | ||
case 3: | ||
uncba = _a.sent(); | ||
if (uncba.readInt32LE(0) !== bamFile_1.BAM_MAGIC) { | ||
throw new Error('Not a BAM file'); | ||
} | ||
headLen = uncba.readInt32LE(4); | ||
headerText = uncba.toString('utf8', 8, 8 + headLen); | ||
samHeader = (0, sam_1.parseHeaderText)(headerText); | ||
idToName = []; | ||
nameToId = {}; | ||
sqLines = samHeader.filter(function (l) { return l.tag === 'SQ'; }); | ||
sqLines.forEach(function (sqLine, refId) { | ||
sqLine.data.forEach(function (item) { | ||
if (item.tag === 'SN') { | ||
// this is the ref name | ||
var refName = item.value; | ||
nameToId[refName] = refId; | ||
idToName[refId] = refName; | ||
} | ||
}); | ||
}); | ||
this.chrToIndex = nameToId; | ||
this.indexToChr = idToName; | ||
return [2 /*return*/, samHeader]; | ||
} | ||
throw new Error("Failed to fetch ".concat(result.statusText)); | ||
case 7: | ||
_context12.next = 9; | ||
return result.json(); | ||
case 9: | ||
data = _context12.sent; | ||
_context12.next = 12; | ||
return concat(data.htsget.urls, opts); | ||
case 12: | ||
uncba = _context12.sent; | ||
if (!(uncba.readInt32LE(0) !== _bamFile.BAM_MAGIC)) { | ||
_context12.next = 15; | ||
break; | ||
} | ||
throw new Error('Not a BAM file'); | ||
case 15: | ||
headLen = uncba.readInt32LE(4); | ||
headerText = uncba.toString('utf8', 8, 8 + headLen); | ||
samHeader = (0, _sam.parseHeaderText)(headerText); // use the @SQ lines in the header to figure out the | ||
// mapping between ref ref ID numbers and names | ||
idToName = []; | ||
nameToId = {}; | ||
sqLines = (0, _filter.default)(samHeader).call(samHeader, function (l) { | ||
return l.tag === 'SQ'; | ||
}); | ||
(0, _forEach.default)(sqLines).call(sqLines, function (sqLine, refId) { | ||
var _context11; | ||
(0, _forEach.default)(_context11 = sqLine.data).call(_context11, function (item) { | ||
if (item.tag === 'SN') { | ||
// this is the ref name | ||
var refName = item.value; | ||
nameToId[refName] = refId; | ||
idToName[refId] = refName; | ||
} | ||
}); | ||
}); | ||
this.chrToIndex = nameToId; | ||
this.indexToChr = idToName; | ||
return _context12.abrupt("return", samHeader); | ||
case 25: | ||
case "end": | ||
return _context12.stop(); | ||
} | ||
} | ||
}, _callee3, this); | ||
})); | ||
function getHeader() { | ||
return _getHeader.apply(this, arguments); | ||
} | ||
return getHeader; | ||
}() | ||
}]); | ||
return HtsgetFile; | ||
}(_bamFile.default); | ||
}); | ||
}); | ||
}; | ||
return HtsgetFile; | ||
}(bamFile_1.default)); | ||
exports.default = HtsgetFile; | ||
//# sourceMappingURL=data:application/json;charset=utf-8;base64,{"version":3,"sources":["../src/htsget.ts"],"names":["concat","arr","opts","all","chunk","url","headers","Buffer","from","split","referer","rest","fetch","res","ok","Error","statusText","arrayBuffer","elt","HtsgetFile","args","bamFilehandle","baiFilehandle","baseUrl","trackId","chr","min","max","viewAsPairs","pairAcrossChr","maxInsertSize","base","chrId","chrToIndex","result","json","data","htsget","urls","uncba","buffer","minv","dataPosition","toString","_fetchChunkFeatures","params","c2","cpositions","dpositions","readInt32LE","BAM_MAGIC","headLen","headerText","samHeader","idToName","nameToId","sqLines","l","tag","sqLine","refId","item","refName","value","indexToChr","BamFile"],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;AACA;;AACA;;AAEA;;AACA;;;;;;;;;;SAWeA,M;;;;;oFAAf,kBAAsBC,GAAtB,EAA8CC,IAA9C;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA,mBACoB,iBAAQC,GAAR,CAChB,kBAAAF,GAAG,MAAH,CAAAA,GAAG;AAAA,iGAAK,kBAAOG,KAAP;AAAA;;AAAA;AAAA;AAAA;AAAA;AACEC,wBAAAA,GADF,GACmBD,KADnB,CACEC,GADF,EACOC,OADP,GACmBF,KADnB,CACOE,OADP;;AAAA,6BAEF,yBAAAD,GAAG,MAAH,CAAAA,GAAG,EAAY,OAAZ,CAFD;AAAA;AAAA;AAAA;;AAAA,2DAGGE,MAAM,CAACC,IAAP,CAAYH,GAAG,CAACI,KAAJ,CAAU,GAAV,EAAe,CAAf,CAAZ,EAA+B,QAA/B,CAHH;;AAAA;AAKJ;AACA;AACA;AACQC,wBAAAA,OARJ,GAQyBJ,OARzB,CAQII,OARJ,EAQgBC,IARhB,0CAQyBL,OARzB;AAAA;AAAA,+BAScM,KAAK,CAACP,GAAD,kCAAWH,IAAX;AAAiBI,0BAAAA,OAAO,kCAAOJ,IAAI,CAACI,OAAZ,GAAwBK,IAAxB;AAAxB,2BATnB;;AAAA;AASEE,wBAAAA,IATF;;AAAA,4BAUCA,IAAG,CAACC,EAVL;AAAA;AAAA;AAAA;;AAAA,8BAWI,IAAIC,KAAJ,2BAA6BF,IAAG,CAACG,UAAjC,EAXJ;;AAAA;AAAA,wCAaGT,MAbH;AAAA;AAAA,+BAaqBM,IAAG,CAACI,WAAJ,EAbrB;;AAAA;AAAA;AAAA,yEAaUT,IAbV;;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA,eAAL;;AAAA;AAAA;AAAA;AAAA,gBADa,CADpB;;AAAA;AACQK,YAAAA,GADR;AAAA,kDAoBSN,MApBT;AAAA,4BAoBSA,MApBT;AAAA;AAAA,mBAoB6B,iBAAQJ,GAAR,CAAY,kBAAAU,GAAG,MAAH,CAAAA,GAAG,EAAK,UAAAK,GAAG;AAAA,qBAAI,2BAAMA,GAAN,CAAJ;AAAA,aAAR,CAAf,CApB7B;;AAAA;AAAA;AAAA;;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA,G;;;;IAuBqBC,U;;;;;AAKnB,sBAAYC,IAAZ,EAAwD;AAAA;;AAAA;AACtD;AACA,+BAAM;AAAEC,MAAAA,aAAa,EAAE,GAAjB;AAAsBC,MAAAA,aAAa,EAAE;AAArC,KAAN;AAFsD;AAAA;AAGtD,WAAKC,OAAL,GAAeH,IAAI,CAACG,OAApB;AACA,WAAKC,OAAL,GAAeJ,IAAI,CAACI,OAApB;AAJsD;AAKvD;;;;0CAGCC,G,EACAC,G,EACAC,G,EAEA;AAAA;;AAAA,UADAzB,IACA,uEADgB;AAAE0B,QAAAA,WAAW,EAAE,KAAf;AAAsBC,QAAAA,aAAa,EAAE,KAArC;AAA4CC,QAAAA,aAAa,EAAE;AAA3D,OAChB;AAAA;AAAA;;AAAA;AAAA;AAAA;AAAA;AAAA;AACMC,gBAAAA,IADN,8CACgB,KAAI,CAACR,OADrB,uBACgC,KAAI,CAACC,OADrC;AAEMnB,gBAAAA,GAFN,mHAEe0B,IAFf,sCAEqCN,GAFrC,8BAEkDC,GAFlD,4BAE6DC,GAF7D;AAGMK,gBAAAA,KAHN,GAGc,KAAI,CAACC,UAAL,IAAmB,KAAI,CAACA,UAAL,CAAgBR,GAAhB,CAHjC;AAAA;AAAA,0DAIqBb,KAAK,CAACP,GAAD,oBAAWH,IAAX,EAJ1B;;AAAA;AAIMgC,gBAAAA,MAJN;;AAAA,oBAKKA,MAAM,CAACpB,EALZ;AAAA;AAAA;AAAA;;AAAA,sBAMQ,IAAIC,KAAJ,CAAUmB,MAAM,CAAClB,UAAjB,CANR;;AAAA;AAAA;AAAA,0DAQmBkB,MAAM,CAACC,IAAP,EARnB;;AAAA;AAQMC,gBAAAA,IARN;AAAA;AAAA,0DASoBpC,MAAM,CAAC,gCAAAoC,IAAI,CAACC,MAAL,CAAYC,IAAZ,kBAAuB,CAAvB,CAAD,EAA4BpC,IAA5B,CAT1B;;AAAA;AASMqC,gBAAAA,KATN;AAUMnC,gBAAAA,KAVN,GAUc;AACZoC,kBAAAA,MAAM,EAAED,KADI;AAEZnC,kBAAAA,KAAK,EAAE;AAAEqC,oBAAAA,IAAI,EAAE;AAAEC,sBAAAA,YAAY,EAAE;AAAhB;AAAR,mBAFK;AAGZC,kBAAAA,QAHY,sBAGD;AAAA;;AACT,yGAAUlB,GAAV,wBAAiBC,GAAjB,wBAAwBC,GAAxB;AACD;AALW,iBAVd;AAkBA,kHAAO,KAAI,CAACiB,mBAAL,EACL;AACA,iBAACxC,KAAD,CAFK,EAGL4B,KAHK,EAILN,GAJK,EAKLC,GALK,EAMLzB,IANK,CAAP;;AAlBA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AA0BD,K,CAED;;;;;kHACiB2C,M;;;;;;AACPzC,gBAAAA,K,GAAUyC,M,CAAVzC,K;AACAoC,gBAAAA,M,GAAsBpC,K,CAAtBoC,M,EAAeM,E,GAAO1C,K,CAAdA,K;kDACT;AAAEgC,kBAAAA,IAAI,EAAEI,MAAR;AAAgBO,kBAAAA,UAAU,EAAE,IAA5B;AAAkCC,kBAAAA,UAAU,EAAE,IAA9C;AAAoD5C,kBAAAA,KAAK,EAAE0C;AAA3D,iB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;AAGO5C,gBAAAA,I,8DAAiB,E;AACzBG,gBAAAA,G,gDAAS,KAAKkB,O,yBAAW,KAAKC,O;;uBACfZ,KAAK,CAACP,GAAD,EAAMH,IAAN,C;;;AAApBgC,gBAAAA,M;;oBACDA,MAAM,CAACpB,E;;;;;sBACJ,IAAIC,KAAJ,2BAA6BmB,MAAM,CAAClB,UAApC,E;;;;uBAEWkB,MAAM,CAACC,IAAP,E;;;AAAbC,gBAAAA,I;;uBACcpC,MAAM,CAACoC,IAAI,CAACC,MAAL,CAAYC,IAAb,EAAmBpC,IAAnB,C;;;AAApBqC,gBAAAA,K;;sBAEFA,KAAK,CAACU,WAAN,CAAkB,CAAlB,MAAyBC,kB;;;;;sBACrB,IAAInC,KAAJ,CAAU,gBAAV,C;;;AAEFoC,gBAAAA,O,GAAUZ,KAAK,CAACU,WAAN,CAAkB,CAAlB,C;AAEVG,gBAAAA,U,GAAab,KAAK,CAACI,QAAN,CAAe,MAAf,EAAuB,CAAvB,EAA0B,IAAIQ,OAA9B,C;AACbE,gBAAAA,S,GAAY,0BAAgBD,UAAhB,C,EAElB;AACA;;AACME,gBAAAA,Q,GAAqB,E;AACrBC,gBAAAA,Q,GAAmC,E;AACnCC,gBAAAA,O,GAAU,qBAAAH,SAAS,MAAT,CAAAA,SAAS,EAAQ,UAACI,CAAD;AAAA,yBAAwBA,CAAC,CAACC,GAAF,KAAU,IAAlC;AAAA,iBAAR,C;AACzB,sCAAAF,OAAO,MAAP,CAAAA,OAAO,EAAS,UAACG,MAAD,EAAiCC,KAAjC,EAAmD;AAAA;;AACjE,qDAAAD,MAAM,CAACvB,IAAP,mBAAoB,UAACyB,IAAD,EAAsB;AACxC,wBAAIA,IAAI,CAACH,GAAL,KAAa,IAAjB,EAAuB;AACrB;AACA,0BAAMI,OAAO,GAAGD,IAAI,CAACE,KAArB;AACAR,sBAAAA,QAAQ,CAACO,OAAD,CAAR,GAAoBF,KAApB;AACAN,sBAAAA,QAAQ,CAACM,KAAD,CAAR,GAAkBE,OAAlB;AACD;AACF,mBAPD;AAQD,iBATM,CAAP;AAUA,qBAAK7B,UAAL,GAAkBsB,QAAlB;AACA,qBAAKS,UAAL,GAAkBV,QAAlB;mDACOD,S;;;;;;;;;;;;;;;;;;EAtF6BY,gB","sourcesContent":["import { BaseOpts, BamOpts } from './util'\nimport BamFile, { BAM_MAGIC } from './bamFile'\nimport 'cross-fetch/polyfill'\nimport Chunk from './chunk'\nimport { unzip } from '@gmod/bgzf-filehandle'\nimport { parseHeaderText } from './sam'\n\ninterface HeaderLine {\n  tag: string\n  value: string\n}\n\ninterface HtsgetChunk {\n  url: string\n  headers?: Record<string, string>\n}\nasync function concat(arr: { url: string }[], opts: Record<string, any>) {\n  const res = await Promise.all(\n    arr.map(async (chunk: HtsgetChunk) => {\n      const { url, headers } = chunk\n      if (url.startsWith('data:')) {\n        return Buffer.from(url.split(',')[1], 'base64')\n      } else {\n        //remove referer header, it is not even allowed to be specified\n        //@ts-ignore\n        //eslint-disable-next-line @typescript-eslint/no-unused-vars\n        const { referer, ...rest } = headers\n        const res = await fetch(url, { ...opts, headers: { ...opts.headers, ...rest } })\n        if (!res.ok) {\n          throw new Error(`Failed to fetch ${res.statusText}`)\n        }\n        return Buffer.from(await res.arrayBuffer())\n      }\n    }),\n  )\n\n  return Buffer.concat(await Promise.all(res.map(elt => unzip(elt))))\n}\n\nexport default class HtsgetFile extends BamFile {\n  private baseUrl: string\n\n  private trackId: string\n\n  constructor(args: { trackId: string; baseUrl: string }) {\n    // @ts-ignore override bam defaults\n    super({ bamFilehandle: '?', baiFilehandle: '?' })\n    this.baseUrl = args.baseUrl\n    this.trackId = args.trackId\n  }\n\n  async *streamRecordsForRange(\n    chr: string,\n    min: number,\n    max: number,\n    opts: BamOpts = { viewAsPairs: false, pairAcrossChr: false, maxInsertSize: 200000 },\n  ) {\n    const base = `${this.baseUrl}/${this.trackId}`\n    const url = `${base}?referenceName=${chr}&start=${min}&end=${max}&format=BAM`\n    const chrId = this.chrToIndex && this.chrToIndex[chr]\n    const result = await fetch(url, { ...opts })\n    if (!result.ok) {\n      throw new Error(result.statusText)\n    }\n    const data = await result.json()\n    const uncba = await concat(data.htsget.urls.slice(1), opts)\n    const chunk = {\n      buffer: uncba,\n      chunk: { minv: { dataPosition: 0 } },\n      toString() {\n        return `${chr}_${min}_${max}`\n      },\n    }\n\n    yield* this._fetchChunkFeatures(\n      // @ts-ignore\n      [chunk],\n      chrId,\n      min,\n      max,\n      opts,\n    )\n  }\n\n  //@ts-ignore\n  async _readChunk(params: { chunk: { buffer: Buffer; chunk: Chunk }; opts: BaseOpts }) {\n    const { chunk } = params\n    const { buffer, chunk: c2 } = chunk\n    return { data: buffer, cpositions: null, dpositions: null, chunk: c2 }\n  }\n\n  async getHeader(opts: BaseOpts = {}) {\n    const url = `${this.baseUrl}/${this.trackId}?referenceName=na&class=header`\n    const result = await fetch(url, opts)\n    if (!result.ok) {\n      throw new Error(`Failed to fetch ${result.statusText}`)\n    }\n    const data = await result.json()\n    const uncba = await concat(data.htsget.urls, opts)\n\n    if (uncba.readInt32LE(0) !== BAM_MAGIC) {\n      throw new Error('Not a BAM file')\n    }\n    const headLen = uncba.readInt32LE(4)\n\n    const headerText = uncba.toString('utf8', 8, 8 + headLen)\n    const samHeader = parseHeaderText(headerText)\n\n    // use the @SQ lines in the header to figure out the\n    // mapping between ref ref ID numbers and names\n    const idToName: string[] = []\n    const nameToId: Record<string, number> = {}\n    const sqLines = samHeader.filter((l: { tag: string }) => l.tag === 'SQ')\n    sqLines.forEach((sqLine: { data: HeaderLine[] }, refId: number) => {\n      sqLine.data.forEach((item: HeaderLine) => {\n        if (item.tag === 'SN') {\n          // this is the ref name\n          const refName = item.value\n          nameToId[refName] = refId\n          idToName[refId] = refName\n        }\n      })\n    })\n    this.chrToIndex = nameToId\n    this.indexToChr = idToName\n    return samHeader\n  }\n}\n"]} | ||
//# sourceMappingURL=htsget.js.map |
"use strict"; | ||
var _interopRequireDefault = require("@babel/runtime-corejs3/helpers/interopRequireDefault"); | ||
var _Object$defineProperty = require("@babel/runtime-corejs3/core-js-stable/object/define-property"); | ||
_Object$defineProperty(exports, "__esModule", { | ||
value: true | ||
}); | ||
_Object$defineProperty(exports, "BAI", { | ||
enumerable: true, | ||
get: function get() { | ||
return _bai.default; | ||
} | ||
}); | ||
_Object$defineProperty(exports, "CSI", { | ||
enumerable: true, | ||
get: function get() { | ||
return _csi.default; | ||
} | ||
}); | ||
_Object$defineProperty(exports, "BamFile", { | ||
enumerable: true, | ||
get: function get() { | ||
return _bamFile.default; | ||
} | ||
}); | ||
_Object$defineProperty(exports, "HtsgetFile", { | ||
enumerable: true, | ||
get: function get() { | ||
return _htsget.default; | ||
} | ||
}); | ||
_Object$defineProperty(exports, "BamRecord", { | ||
enumerable: true, | ||
get: function get() { | ||
return _record.default; | ||
} | ||
}); | ||
var _bai = _interopRequireDefault(require("./bai")); | ||
var _csi = _interopRequireDefault(require("./csi")); | ||
var _bamFile = _interopRequireDefault(require("./bamFile")); | ||
var _htsget = _interopRequireDefault(require("./htsget")); | ||
var _record = _interopRequireDefault(require("./record")); | ||
//# sourceMappingURL=data:application/json;charset=utf-8;base64,eyJ2ZXJzaW9uIjozLCJzb3VyY2VzIjpbIi4uL3NyYy9pbmRleC50cyJdLCJuYW1lcyI6W10sIm1hcHBpbmdzIjoiOzs7Ozs7Ozs7Ozs7Ozs7Ozs7Ozs7Ozs7Ozs7Ozs7Ozs7Ozs7Ozs7Ozs7Ozs7QUFBQTs7QUFDQTs7QUFDQTs7QUFDQTs7QUFDQSIsInNvdXJjZXNDb250ZW50IjpbImltcG9ydCBCQUkgZnJvbSAnLi9iYWknXG5pbXBvcnQgQ1NJIGZyb20gJy4vY3NpJ1xuaW1wb3J0IEJhbUZpbGUgZnJvbSAnLi9iYW1GaWxlJ1xuaW1wb3J0IEh0c2dldEZpbGUgZnJvbSAnLi9odHNnZXQnXG5pbXBvcnQgQmFtUmVjb3JkIGZyb20gJy4vcmVjb3JkJ1xuXG5leHBvcnQgeyBCQUksIENTSSwgQmFtRmlsZSwgQmFtUmVjb3JkLCBIdHNnZXRGaWxlIH1cbiJdfQ== | ||
var __importDefault = (this && this.__importDefault) || function (mod) { | ||
return (mod && mod.__esModule) ? mod : { "default": mod }; | ||
}; | ||
Object.defineProperty(exports, "__esModule", { value: true }); | ||
exports.HtsgetFile = exports.BamRecord = exports.BamFile = exports.CSI = exports.BAI = void 0; | ||
var bai_1 = __importDefault(require("./bai")); | ||
exports.BAI = bai_1.default; | ||
var csi_1 = __importDefault(require("./csi")); | ||
exports.CSI = csi_1.default; | ||
var bamFile_1 = __importDefault(require("./bamFile")); | ||
exports.BamFile = bamFile_1.default; | ||
var htsget_1 = __importDefault(require("./htsget")); | ||
exports.HtsgetFile = htsget_1.default; | ||
var record_1 = __importDefault(require("./record")); | ||
exports.BamRecord = record_1.default; | ||
//# sourceMappingURL=index.js.map |
@@ -7,4 +7,3 @@ import { GenericFilehandle } from 'generic-filehandle'; | ||
filehandle: GenericFilehandle; | ||
renameRefSeq: Function; | ||
private _parseCache; | ||
renameRefSeq: (s: string) => string; | ||
/** | ||
@@ -11,0 +10,0 @@ * @param {filehandle} filehandle |
"use strict"; | ||
var _interopRequireDefault = require("@babel/runtime-corejs3/helpers/interopRequireDefault"); | ||
var _Object$defineProperty2 = require("@babel/runtime-corejs3/core-js-stable/object/define-property"); | ||
_Object$defineProperty2(exports, "__esModule", { | ||
value: true | ||
}); | ||
exports.default = void 0; | ||
var _defineProperty2 = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/object/define-property")); | ||
var _defineProperties = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/object/define-properties")); | ||
var _getOwnPropertyDescriptors = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/object/get-own-property-descriptors")); | ||
var _forEach = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/for-each")); | ||
var _getOwnPropertyDescriptor = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/object/get-own-property-descriptor")); | ||
var _filter = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/filter")); | ||
var _getOwnPropertySymbols = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/object/get-own-property-symbols")); | ||
var _keys = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/object/keys")); | ||
var _regenerator = _interopRequireDefault(require("@babel/runtime-corejs3/regenerator")); | ||
var _asyncToGenerator2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/asyncToGenerator")); | ||
var _classCallCheck2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/classCallCheck")); | ||
var _createClass2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/createClass")); | ||
var _defineProperty3 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/defineProperty")); | ||
var _abortablePromiseCache = _interopRequireDefault(require("abortable-promise-cache")); | ||
var _quickLru = _interopRequireDefault(require("quick-lru")); | ||
function ownKeys(object, enumerableOnly) { var keys = (0, _keys.default)(object); if (_getOwnPropertySymbols.default) { var symbols = (0, _getOwnPropertySymbols.default)(object); if (enumerableOnly) symbols = (0, _filter.default)(symbols).call(symbols, function (sym) { return (0, _getOwnPropertyDescriptor.default)(object, sym).enumerable; }); keys.push.apply(keys, symbols); } return keys; } | ||
function _objectSpread(target) { for (var i = 1; i < arguments.length; i++) { var source = arguments[i] != null ? arguments[i] : {}; if (i % 2) { var _context3; (0, _forEach.default)(_context3 = ownKeys(Object(source), true)).call(_context3, function (key) { (0, _defineProperty3.default)(target, key, source[key]); }); } else if (_getOwnPropertyDescriptors.default) { (0, _defineProperties.default)(target, (0, _getOwnPropertyDescriptors.default)(source)); } else { var _context4; (0, _forEach.default)(_context4 = ownKeys(Object(source))).call(_context4, function (key) { (0, _defineProperty2.default)(target, key, (0, _getOwnPropertyDescriptor.default)(source, key)); }); } } return target; } | ||
var IndexFile = /*#__PURE__*/function () { | ||
/** | ||
* @param {filehandle} filehandle | ||
* @param {function} [renameRefSeqs] | ||
*/ | ||
function IndexFile(_ref) { | ||
var filehandle = _ref.filehandle, | ||
_ref$renameRefSeq = _ref.renameRefSeq, | ||
renameRefSeq = _ref$renameRefSeq === void 0 ? function (n) { | ||
return n; | ||
} : _ref$renameRefSeq; | ||
(0, _classCallCheck2.default)(this, IndexFile); | ||
(0, _defineProperty3.default)(this, "filehandle", void 0); | ||
(0, _defineProperty3.default)(this, "renameRefSeq", void 0); | ||
(0, _defineProperty3.default)(this, "_parseCache", void 0); | ||
this.filehandle = filehandle; | ||
this.renameRefSeq = renameRefSeq; | ||
} | ||
(0, _createClass2.default)(IndexFile, [{ | ||
key: "_findFirstData", | ||
value: function _findFirstData(data, virtualOffset) { | ||
var currentFdl = data.firstDataLine; | ||
if (currentFdl) { | ||
data.firstDataLine = currentFdl.compareTo(virtualOffset) > 0 ? virtualOffset : currentFdl; | ||
} else { | ||
data.firstDataLine = virtualOffset; | ||
} | ||
var __awaiter = (this && this.__awaiter) || function (thisArg, _arguments, P, generator) { | ||
function adopt(value) { return value instanceof P ? value : new P(function (resolve) { resolve(value); }); } | ||
return new (P || (P = Promise))(function (resolve, reject) { | ||
function fulfilled(value) { try { step(generator.next(value)); } catch (e) { reject(e); } } | ||
function rejected(value) { try { step(generator["throw"](value)); } catch (e) { reject(e); } } | ||
function step(result) { result.done ? resolve(result.value) : adopt(result.value).then(fulfilled, rejected); } | ||
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 }; | ||
} | ||
}, { | ||
key: "parse", | ||
value: function () { | ||
var _parse2 = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee() { | ||
var _this = this; | ||
var opts, | ||
_args = arguments; | ||
return _regenerator.default.wrap(function _callee$(_context) { | ||
while (1) { | ||
switch (_context.prev = _context.next) { | ||
case 0: | ||
opts = _args.length > 0 && _args[0] !== undefined ? _args[0] : {}; | ||
if (!this._parseCache) { | ||
this._parseCache = new _abortablePromiseCache.default({ | ||
cache: new _quickLru.default({ | ||
maxSize: 1 | ||
}), | ||
fill: function fill(opts, signal) { | ||
return _this._parse(_objectSpread(_objectSpread({}, opts), {}, { | ||
signal: signal | ||
})); | ||
} | ||
}); | ||
}; | ||
Object.defineProperty(exports, "__esModule", { value: true }); | ||
var IndexFile = /** @class */ (function () { | ||
/** | ||
* @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; | ||
this.filehandle = filehandle; | ||
this.renameRefSeq = renameRefSeq; | ||
} | ||
IndexFile.prototype._findFirstData = function (data, virtualOffset) { | ||
var currentFdl = data.firstDataLine; | ||
if (currentFdl) { | ||
data.firstDataLine = | ||
currentFdl.compareTo(virtualOffset) > 0 ? virtualOffset : currentFdl; | ||
} | ||
else { | ||
data.firstDataLine = virtualOffset; | ||
} | ||
}; | ||
IndexFile.prototype.parse = function (opts) { | ||
if (opts === void 0) { opts = {}; } | ||
return __awaiter(this, void 0, void 0, function () { | ||
return __generator(this, function (_a) { | ||
return [2 /*return*/, this._parse(opts)]; | ||
}); | ||
}); | ||
}; | ||
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]; | ||
} | ||
return _context.abrupt("return", this._parseCache.get('index', opts, opts.signal)); | ||
case 3: | ||
case "end": | ||
return _context.stop(); | ||
} | ||
} | ||
}, _callee, this); | ||
})); | ||
function parse() { | ||
return _parse2.apply(this, arguments); | ||
} | ||
return parse; | ||
}() | ||
}, { | ||
key: "hasRefSeq", | ||
value: function () { | ||
var _hasRefSeq = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee2(seqId) { | ||
var opts, | ||
_args2 = arguments; | ||
return _regenerator.default.wrap(function _callee2$(_context2) { | ||
while (1) { | ||
switch (_context2.prev = _context2.next) { | ||
case 0: | ||
opts = _args2.length > 1 && _args2[1] !== undefined ? _args2[1] : {}; | ||
_context2.next = 3; | ||
return this.parse(opts); | ||
case 3: | ||
_context2.t1 = seqId; | ||
_context2.t0 = _context2.sent.indices[_context2.t1]; | ||
if (_context2.t0) { | ||
_context2.next = 7; | ||
break; | ||
} | ||
_context2.t0 = {}; | ||
case 7: | ||
return _context2.abrupt("return", !!_context2.t0.binIndex); | ||
case 8: | ||
case "end": | ||
return _context2.stop(); | ||
} | ||
} | ||
}, _callee2, this); | ||
})); | ||
function hasRefSeq(_x) { | ||
return _hasRefSeq.apply(this, arguments); | ||
} | ||
return hasRefSeq; | ||
}() | ||
}]); | ||
return IndexFile; | ||
}(); | ||
}); | ||
}); | ||
}; | ||
return IndexFile; | ||
}()); | ||
exports.default = IndexFile; | ||
//# sourceMappingURL=data:application/json;charset=utf-8;base64,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 | ||
//# sourceMappingURL=indexFile.js.map |
1203
dist/record.js
"use strict"; | ||
var _interopRequireDefault = require("@babel/runtime-corejs3/helpers/interopRequireDefault"); | ||
var _Object$defineProperty = require("@babel/runtime-corejs3/core-js-stable/object/define-property"); | ||
_Object$defineProperty(exports, "__esModule", { | ||
value: true | ||
}); | ||
exports.default = void 0; | ||
var _flags2 = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/flags")); | ||
var _parseInt2 = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/parse-int")); | ||
var _filter = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/filter")); | ||
var _keys = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/object/keys")); | ||
var _forEach = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/for-each")); | ||
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")); | ||
var _map = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/map")); | ||
var _constants = _interopRequireDefault(require("./constants")); | ||
var _context; | ||
var SEQRET_DECODER = (0, _map.default)(_context = '=ACMGRSVTWYHKDBN'.split('')).call(_context, function (s) { | ||
return s.charCodeAt(0); | ||
}); | ||
var __importDefault = (this && this.__importDefault) || function (mod) { | ||
return (mod && mod.__esModule) ? mod : { "default": mod }; | ||
}; | ||
Object.defineProperty(exports, "__esModule", { value: true }); | ||
/* eslint-disable @typescript-eslint/no-empty-function */ | ||
var constants_1 = __importDefault(require("./constants")); | ||
var SEQRET_DECODER = '=ACMGRSVTWYHKDBN'.split('').map(function (s) { return s.charCodeAt(0); }); | ||
var CIGAR_DECODER = 'MIDNSHP=X???????'.split(''); | ||
@@ -44,186 +13,135 @@ /** | ||
*/ | ||
var BamRecord = /*#__PURE__*/function () { | ||
function BamRecord(args) { | ||
(0, _classCallCheck2.default)(this, BamRecord); | ||
(0, _defineProperty2.default)(this, "data", void 0); | ||
(0, _defineProperty2.default)(this, "bytes", void 0); | ||
(0, _defineProperty2.default)(this, "flags", void 0); | ||
(0, _defineProperty2.default)(this, "_id", void 0); | ||
(0, _defineProperty2.default)(this, "_refID", void 0); | ||
(0, _defineProperty2.default)(this, "_tagOffset", undefined); | ||
(0, _defineProperty2.default)(this, "_tagList", []); | ||
(0, _defineProperty2.default)(this, "_allTagsParsed", false); | ||
this.data = {}; | ||
this.bytes = { | ||
start: args.bytes.start, | ||
end: args.bytes.end, | ||
byteArray: args.bytes.byteArray | ||
var BamRecord = /** @class */ (function () { | ||
function BamRecord(args) { | ||
this._tagOffset = undefined; | ||
this._tagList = []; | ||
this._allTagsParsed = false; | ||
this.data = {}; | ||
this.bytes = { | ||
start: args.bytes.start, | ||
end: args.bytes.end, | ||
byteArray: args.bytes.byteArray, | ||
}; | ||
this._id = args.fileOffset; | ||
var _a = this.bytes, start = _a.start, byteArray = _a.byteArray; | ||
this._refID = byteArray.readInt32LE(start + 4); | ||
this.data.start = byteArray.readInt32LE(start + 8); | ||
this.flags = (byteArray.readInt32LE(start + 16) & 0xffff0000) >> 16; | ||
} | ||
BamRecord.prototype.get = function (field) { | ||
//@ts-ignore | ||
if (this[field]) { | ||
//@ts-ignore | ||
if (this.data[field]) { | ||
return this.data[field]; | ||
} | ||
//@ts-ignore | ||
this.data[field] = this[field](); | ||
return this.data[field]; | ||
} | ||
return this._get(field.toLowerCase()); | ||
}; | ||
this._id = args.fileOffset; | ||
var _this$bytes = this.bytes, | ||
start = _this$bytes.start, | ||
byteArray = _this$bytes.byteArray; | ||
this._refID = byteArray.readInt32LE(start + 4); | ||
this.data.start = byteArray.readInt32LE(start + 8); | ||
this.flags = (byteArray.readInt32LE(start + 16) & 0xffff0000) >> 16; | ||
} | ||
(0, _createClass2.default)(BamRecord, [{ | ||
key: "get", | ||
value: function get(field) { | ||
//@ts-ignore | ||
if (this[field]) { | ||
//@ts-ignore | ||
if (this.data[field]) { | ||
return this.data[field]; | ||
} //@ts-ignore | ||
this.data[field] = this[field](); | ||
return this.data[field]; | ||
} | ||
return this._get(field.toLowerCase()); | ||
} | ||
}, { | ||
key: "end", | ||
value: function end() { | ||
return this.get('start') + (this.get('length_on_ref') || this.get('seq_length') || undefined); | ||
} | ||
}, { | ||
key: "seq_id", | ||
value: function seq_id() { | ||
return this._refID; | ||
} // same as get(), except requires lower-case arguments. used | ||
BamRecord.prototype.end = function () { | ||
return (this.get('start') + | ||
(this.get('length_on_ref') || this.get('seq_length') || undefined)); | ||
}; | ||
BamRecord.prototype.seq_id = function () { | ||
return this._refID; | ||
}; | ||
// same as get(), except requires lower-case arguments. used | ||
// internally to save lots of calls to field.toLowerCase() | ||
}, { | ||
key: "_get", | ||
value: function _get(field) { | ||
if (field in this.data) { | ||
BamRecord.prototype._get = function (field) { | ||
if (field in this.data) { | ||
return this.data[field]; | ||
} | ||
this.data[field] = this._parseTag(field); | ||
return this.data[field]; | ||
} | ||
this.data[field] = this._parseTag(field); | ||
return this.data[field]; | ||
} | ||
}, { | ||
key: "_tags", | ||
value: function _tags() { | ||
var _context2, | ||
_this = this; | ||
this._parseAllTags(); | ||
var tags = ['seq']; | ||
if (!this.isSegmentUnmapped()) { | ||
tags.push('start', 'end', 'strand', 'score', 'qual', 'MQ', 'CIGAR', 'length_on_ref', 'template_length'); | ||
} | ||
if (this.isPaired()) { | ||
tags.push('next_segment_position', 'pair_orientation'); | ||
} | ||
tags = (0, _concat.default)(tags).call(tags, this._tagList || []); | ||
(0, _forEach.default)(_context2 = (0, _keys.default)(this.data)).call(_context2, function (k) { | ||
if (k[0] !== '_' && k !== 'next_seq_id') { | ||
tags.push(k); | ||
}; | ||
BamRecord.prototype._tags = function () { | ||
var _this = this; | ||
this._parseAllTags(); | ||
var tags = ['seq']; | ||
if (!this.isSegmentUnmapped()) { | ||
tags.push('start', 'end', 'strand', 'score', 'qual', 'MQ', 'CIGAR', 'length_on_ref', 'template_length'); | ||
} | ||
}); | ||
var seen = {}; | ||
tags = (0, _filter.default)(tags).call(tags, function (t) { | ||
if (t in _this.data && _this.data[t] === undefined || t === 'CG' || t === 'cg') { | ||
return false; | ||
if (this.isPaired()) { | ||
tags.push('next_segment_position', 'pair_orientation'); | ||
} | ||
var lt = t.toLowerCase(); | ||
var s = seen[lt]; | ||
seen[lt] = true; | ||
return !s; | ||
}); | ||
return tags; | ||
} | ||
}, { | ||
key: "parent", | ||
value: function parent() { | ||
return undefined; | ||
} | ||
}, { | ||
key: "children", | ||
value: function children() { | ||
return this.get('subfeatures'); | ||
} | ||
}, { | ||
key: "id", | ||
value: function id() { | ||
return this._id; | ||
} // special parsers | ||
tags = tags.concat(this._tagList || []); | ||
Object.keys(this.data).forEach(function (k) { | ||
if (k[0] !== '_' && k !== 'next_seq_id') { | ||
tags.push(k); | ||
} | ||
}); | ||
var seen = {}; | ||
tags = tags.filter(function (t) { | ||
if ((t in _this.data && _this.data[t] === undefined) || | ||
t === 'CG' || | ||
t === 'cg') { | ||
return false; | ||
} | ||
var lt = t.toLowerCase(); | ||
var s = seen[lt]; | ||
seen[lt] = true; | ||
return !s; | ||
}); | ||
return tags; | ||
}; | ||
BamRecord.prototype.parent = function () { | ||
return undefined; | ||
}; | ||
BamRecord.prototype.children = function () { | ||
return this.get('subfeatures'); | ||
}; | ||
BamRecord.prototype.id = function () { | ||
return this._id; | ||
}; | ||
// special parsers | ||
/** | ||
* Mapping quality score. | ||
*/ | ||
}, { | ||
key: "mq", | ||
value: function mq() { | ||
var mq = (this.get('_bin_mq_nl') & 0xff00) >> 8; | ||
return mq === 255 ? undefined : mq; | ||
} | ||
}, { | ||
key: "score", | ||
value: function score() { | ||
return this.get('mq'); | ||
} | ||
}, { | ||
key: "qual", | ||
value: function qual() { | ||
var _this$qualRaw; | ||
return (_this$qualRaw = this.qualRaw()) === null || _this$qualRaw === void 0 ? void 0 : _this$qualRaw.join(' '); | ||
} | ||
}, { | ||
key: "qualRaw", | ||
value: function qualRaw() { | ||
if (this.isSegmentUnmapped()) { | ||
return undefined; | ||
} | ||
var byteArray = this.bytes.byteArray; | ||
var p = this.bytes.start + 36 + this.get('_l_read_name') + this.get('_n_cigar_op') * 4 + this.get('_seq_bytes'); | ||
var lseq = this.get('seq_length'); | ||
var qseq = Buffer.allocUnsafe(lseq); | ||
for (var j = 0; j < lseq; ++j) { | ||
qseq[j] = byteArray[p + j]; | ||
} | ||
return qseq; | ||
} | ||
}, { | ||
key: "strand", | ||
value: function strand() { | ||
return this.isReverseComplemented() ? -1 : 1; | ||
} | ||
}, { | ||
key: "multi_segment_next_segment_strand", | ||
value: function multi_segment_next_segment_strand() { | ||
if (this.isMateUnmapped()) { | ||
return undefined; | ||
} | ||
return this.isMateReverseComplemented() ? -1 : 1; | ||
} | ||
}, { | ||
key: "name", | ||
value: function name() { | ||
return this.get('_read_name'); | ||
} | ||
}, { | ||
key: "_read_name", | ||
value: function _read_name() { | ||
var nl = this.get('_l_read_name'); | ||
return this.bytes.byteArray.toString('ascii', this.bytes.start + 36, this.bytes.start + 36 + nl - 1); | ||
} | ||
BamRecord.prototype.mq = function () { | ||
var mq = (this.get('_bin_mq_nl') & 0xff00) >> 8; | ||
return mq === 255 ? undefined : mq; | ||
}; | ||
BamRecord.prototype.score = function () { | ||
return this.get('mq'); | ||
}; | ||
BamRecord.prototype.qual = function () { | ||
var _a; | ||
return (_a = this.qualRaw()) === null || _a === void 0 ? void 0 : _a.join(' '); | ||
}; | ||
BamRecord.prototype.qualRaw = function () { | ||
if (this.isSegmentUnmapped()) { | ||
return undefined; | ||
} | ||
var byteArray = this.bytes.byteArray; | ||
var p = this.bytes.start + | ||
36 + | ||
this.get('_l_read_name') + | ||
this.get('_n_cigar_op') * 4 + | ||
this.get('_seq_bytes'); | ||
var lseq = this.get('seq_length'); | ||
var qseq = Buffer.allocUnsafe(lseq); | ||
for (var j = 0; j < lseq; ++j) { | ||
qseq[j] = byteArray[p + j]; | ||
} | ||
return qseq; | ||
}; | ||
BamRecord.prototype.strand = function () { | ||
return this.isReverseComplemented() ? -1 : 1; | ||
}; | ||
BamRecord.prototype.multi_segment_next_segment_strand = function () { | ||
if (this.isMateUnmapped()) { | ||
return undefined; | ||
} | ||
return this.isMateReverseComplemented() ? -1 : 1; | ||
}; | ||
BamRecord.prototype.name = function () { | ||
return this.get('_read_name'); | ||
}; | ||
BamRecord.prototype._read_name = function () { | ||
var nl = this.get('_l_read_name'); | ||
return this.bytes.byteArray.toString('ascii', this.bytes.start + 36, this.bytes.start + 36 + nl - 1); | ||
}; | ||
/** | ||
@@ -233,524 +151,395 @@ * Get the value of a tag, parsing the tags as far as necessary. | ||
*/ | ||
}, { | ||
key: "_parseTag", | ||
value: function _parseTag(tagName) { | ||
// if all of the tags have been parsed and we're still being | ||
// called, we already know that we have no such tag, because | ||
// it would already have been cached. | ||
if (this._allTagsParsed) { | ||
return undefined; | ||
} | ||
var byteArray = this.bytes.byteArray; | ||
var p = this._tagOffset || this.bytes.start + 36 + this.get('_l_read_name') + this.get('_n_cigar_op') * 4 + this.get('_seq_bytes') + this.get('seq_length'); | ||
var blockEnd = this.bytes.end; | ||
var lcTag; | ||
while (p < blockEnd && lcTag !== tagName) { | ||
var tag = String.fromCharCode(byteArray[p], byteArray[p + 1]); | ||
lcTag = tag.toLowerCase(); | ||
var type = String.fromCharCode(byteArray[p + 2]); | ||
p += 3; | ||
var value = void 0; | ||
switch (type) { | ||
case 'A': | ||
value = String.fromCharCode(byteArray[p]); | ||
p += 1; | ||
break; | ||
case 'i': | ||
value = byteArray.readInt32LE(p); | ||
p += 4; | ||
break; | ||
case 'I': | ||
value = byteArray.readUInt32LE(p); | ||
p += 4; | ||
break; | ||
case 'c': | ||
value = byteArray.readInt8(p); | ||
p += 1; | ||
break; | ||
case 'C': | ||
value = byteArray.readUInt8(p); | ||
p += 1; | ||
break; | ||
case 's': | ||
value = byteArray.readInt16LE(p); | ||
p += 2; | ||
break; | ||
case 'S': | ||
value = byteArray.readUInt16LE(p); | ||
p += 2; | ||
break; | ||
case 'f': | ||
value = byteArray.readFloatLE(p); | ||
p += 4; | ||
break; | ||
case 'Z': | ||
case 'H': | ||
value = ''; | ||
while (p <= blockEnd) { | ||
var cc = byteArray[p++]; | ||
if (cc === 0) { | ||
break; | ||
} else { | ||
value += String.fromCharCode(cc); | ||
} | ||
} | ||
break; | ||
case 'B': | ||
{ | ||
value = ''; | ||
var _cc = byteArray[p++]; | ||
var Btype = String.fromCharCode(_cc); | ||
var limit = byteArray.readInt32LE(p); | ||
p += 4; | ||
if (Btype === 'i') { | ||
if (tag === 'CG') { | ||
for (var k = 0; k < limit; k++) { | ||
var cigop = byteArray.readInt32LE(p); | ||
var lop = cigop >> 4; | ||
var op = CIGAR_DECODER[cigop & 0xf]; | ||
value += lop + op; | ||
BamRecord.prototype._parseTag = function (tagName) { | ||
// if all of the tags have been parsed and we're still being | ||
// called, we already know that we have no such tag, because | ||
// it would already have been cached. | ||
if (this._allTagsParsed) { | ||
return undefined; | ||
} | ||
var byteArray = this.bytes.byteArray; | ||
var p = this._tagOffset || | ||
this.bytes.start + | ||
36 + | ||
this.get('_l_read_name') + | ||
this.get('_n_cigar_op') * 4 + | ||
this.get('_seq_bytes') + | ||
this.get('seq_length'); | ||
var blockEnd = this.bytes.end; | ||
var lcTag; | ||
while (p < blockEnd && lcTag !== tagName) { | ||
var tag = String.fromCharCode(byteArray[p], byteArray[p + 1]); | ||
lcTag = tag.toLowerCase(); | ||
var type = String.fromCharCode(byteArray[p + 2]); | ||
p += 3; | ||
var value = void 0; | ||
switch (type) { | ||
case 'A': | ||
value = String.fromCharCode(byteArray[p]); | ||
p += 1; | ||
break; | ||
case 'i': | ||
value = byteArray.readInt32LE(p); | ||
p += 4; | ||
} | ||
} else { | ||
for (var _k = 0; _k < limit; _k++) { | ||
value += byteArray.readInt32LE(p); | ||
if (_k + 1 < limit) { | ||
value += ','; | ||
} | ||
break; | ||
case 'I': | ||
value = byteArray.readUInt32LE(p); | ||
p += 4; | ||
} | ||
} | ||
} | ||
if (Btype === 'I') { | ||
if (tag === 'CG') { | ||
for (var _k2 = 0; _k2 < limit; _k2++) { | ||
var _cigop = byteArray.readUInt32LE(p); | ||
var _lop = _cigop >> 4; | ||
var _op = CIGAR_DECODER[_cigop & 0xf]; | ||
value += _lop + _op; | ||
break; | ||
case 'c': | ||
value = byteArray.readInt8(p); | ||
p += 1; | ||
break; | ||
case 'C': | ||
value = byteArray.readUInt8(p); | ||
p += 1; | ||
break; | ||
case 's': | ||
value = byteArray.readInt16LE(p); | ||
p += 2; | ||
break; | ||
case 'S': | ||
value = byteArray.readUInt16LE(p); | ||
p += 2; | ||
break; | ||
case 'f': | ||
value = byteArray.readFloatLE(p); | ||
p += 4; | ||
} | ||
} else { | ||
for (var _k3 = 0; _k3 < limit; _k3++) { | ||
value += byteArray.readUInt32LE(p); | ||
if (_k3 + 1 < limit) { | ||
value += ','; | ||
break; | ||
case 'Z': | ||
case 'H': | ||
value = ''; | ||
while (p <= blockEnd) { | ||
var cc = byteArray[p++]; | ||
if (cc === 0) { | ||
break; | ||
} | ||
else { | ||
value += String.fromCharCode(cc); | ||
} | ||
} | ||
break; | ||
case 'B': { | ||
value = ''; | ||
var cc = byteArray[p++]; | ||
var Btype = String.fromCharCode(cc); | ||
var limit = byteArray.readInt32LE(p); | ||
p += 4; | ||
} | ||
if (Btype === 'i') { | ||
if (tag === 'CG') { | ||
for (var k = 0; k < limit; k++) { | ||
var cigop = byteArray.readInt32LE(p); | ||
var lop = cigop >> 4; | ||
var op = CIGAR_DECODER[cigop & 0xf]; | ||
value += lop + op; | ||
p += 4; | ||
} | ||
} | ||
else { | ||
for (var k = 0; k < limit; k++) { | ||
value += byteArray.readInt32LE(p); | ||
if (k + 1 < limit) { | ||
value += ','; | ||
} | ||
p += 4; | ||
} | ||
} | ||
} | ||
if (Btype === 'I') { | ||
if (tag === 'CG') { | ||
for (var k = 0; k < limit; k++) { | ||
var cigop = byteArray.readUInt32LE(p); | ||
var lop = cigop >> 4; | ||
var op = CIGAR_DECODER[cigop & 0xf]; | ||
value += lop + op; | ||
p += 4; | ||
} | ||
} | ||
else { | ||
for (var k = 0; k < limit; k++) { | ||
value += byteArray.readUInt32LE(p); | ||
if (k + 1 < limit) { | ||
value += ','; | ||
} | ||
p += 4; | ||
} | ||
} | ||
} | ||
if (Btype === 's') { | ||
for (var k = 0; k < limit; k++) { | ||
value += byteArray.readInt16LE(p); | ||
if (k + 1 < limit) { | ||
value += ','; | ||
} | ||
p += 2; | ||
} | ||
} | ||
if (Btype === 'S') { | ||
for (var k = 0; k < limit; k++) { | ||
value += byteArray.readUInt16LE(p); | ||
if (k + 1 < limit) { | ||
value += ','; | ||
} | ||
p += 2; | ||
} | ||
} | ||
if (Btype === 'c') { | ||
for (var k = 0; k < limit; k++) { | ||
value += byteArray.readInt8(p); | ||
if (k + 1 < limit) { | ||
value += ','; | ||
} | ||
p += 1; | ||
} | ||
} | ||
if (Btype === 'C') { | ||
for (var k = 0; k < limit; k++) { | ||
value += byteArray.readUInt8(p); | ||
if (k + 1 < limit) { | ||
value += ','; | ||
} | ||
p += 1; | ||
} | ||
} | ||
if (Btype === 'f') { | ||
for (var k = 0; k < limit; k++) { | ||
value += byteArray.readFloatLE(p); | ||
if (k + 1 < limit) { | ||
value += ','; | ||
} | ||
p += 4; | ||
} | ||
} | ||
break; | ||
} | ||
} | ||
if (Btype === 's') { | ||
for (var _k4 = 0; _k4 < limit; _k4++) { | ||
value += byteArray.readInt16LE(p); | ||
if (_k4 + 1 < limit) { | ||
value += ','; | ||
} | ||
p += 2; | ||
} | ||
} | ||
if (Btype === 'S') { | ||
for (var _k5 = 0; _k5 < limit; _k5++) { | ||
value += byteArray.readUInt16LE(p); | ||
if (_k5 + 1 < limit) { | ||
value += ','; | ||
} | ||
p += 2; | ||
} | ||
} | ||
if (Btype === 'c') { | ||
for (var _k6 = 0; _k6 < limit; _k6++) { | ||
value += byteArray.readInt8(p); | ||
if (_k6 + 1 < limit) { | ||
value += ','; | ||
} | ||
p += 1; | ||
} | ||
} | ||
if (Btype === 'C') { | ||
for (var _k7 = 0; _k7 < limit; _k7++) { | ||
value += byteArray.readUInt8(p); | ||
if (_k7 + 1 < limit) { | ||
value += ','; | ||
} | ||
p += 1; | ||
} | ||
} | ||
if (Btype === 'f') { | ||
for (var _k8 = 0; _k8 < limit; _k8++) { | ||
value += byteArray.readFloatLE(p); | ||
if (_k8 + 1 < limit) { | ||
value += ','; | ||
} | ||
p += 4; | ||
} | ||
} | ||
break; | ||
default: | ||
console.warn("Unknown BAM tag type '".concat(type, "', tags may be incomplete")); | ||
value = undefined; | ||
p = blockEnd; // stop parsing tags | ||
} | ||
default: | ||
console.warn("Unknown BAM tag type '".concat(type, "', tags may be incomplete")); | ||
value = undefined; | ||
p = blockEnd; | ||
// stop parsing tags | ||
this._tagOffset = p; | ||
this._tagList.push(tag); | ||
if (lcTag === tagName) { | ||
return value; | ||
} | ||
this.data[lcTag] = value; | ||
} | ||
this._tagOffset = p; | ||
this._tagList.push(tag); | ||
if (lcTag === tagName) { | ||
return value; | ||
} | ||
this.data[lcTag] = value; | ||
} | ||
this._allTagsParsed = true; | ||
return undefined; | ||
} | ||
}, { | ||
key: "_parseAllTags", | ||
value: function _parseAllTags() { | ||
this._parseTag(''); | ||
} | ||
}, { | ||
key: "_parseCigar", | ||
value: function _parseCigar(cigar) { | ||
var _context3; | ||
return (//@ts-ignore | ||
(0, _map.default)(_context3 = cigar.match(/\d+\D/g)).call(_context3, function (op) { | ||
return [op.match(/\D/)[0].toUpperCase(), (0, _parseInt2.default)(op, 10)]; | ||
}) | ||
); | ||
} | ||
this._allTagsParsed = true; | ||
return undefined; | ||
}; | ||
BamRecord.prototype._parseAllTags = function () { | ||
this._parseTag(''); | ||
}; | ||
BamRecord.prototype._parseCigar = function (cigar) { | ||
return ( | ||
//@ts-ignore | ||
cigar | ||
.match(/\d+\D/g) | ||
//@ts-ignore | ||
.map(function (op) { return [op.match(/\D/)[0].toUpperCase(), parseInt(op, 10)]; })); | ||
}; | ||
/** | ||
* @returns {boolean} true if the read is paired, regardless of whether both segments are mapped | ||
*/ | ||
}, { | ||
key: "isPaired", | ||
value: function isPaired() { | ||
return !!((0, _flags2.default)(this) & _constants.default.BAM_FPAIRED); | ||
} | ||
BamRecord.prototype.isPaired = function () { | ||
return !!(this.flags & constants_1.default.BAM_FPAIRED); | ||
}; | ||
/** @returns {boolean} true if the read is paired, and both segments are mapped */ | ||
}, { | ||
key: "isProperlyPaired", | ||
value: function isProperlyPaired() { | ||
return !!((0, _flags2.default)(this) & _constants.default.BAM_FPROPER_PAIR); | ||
} | ||
BamRecord.prototype.isProperlyPaired = function () { | ||
return !!(this.flags & constants_1.default.BAM_FPROPER_PAIR); | ||
}; | ||
/** @returns {boolean} true if the read itself is unmapped; conflictive with isProperlyPaired */ | ||
}, { | ||
key: "isSegmentUnmapped", | ||
value: function isSegmentUnmapped() { | ||
return !!((0, _flags2.default)(this) & _constants.default.BAM_FUNMAP); | ||
} | ||
BamRecord.prototype.isSegmentUnmapped = function () { | ||
return !!(this.flags & constants_1.default.BAM_FUNMAP); | ||
}; | ||
/** @returns {boolean} true if the read itself is unmapped; conflictive with isProperlyPaired */ | ||
}, { | ||
key: "isMateUnmapped", | ||
value: function isMateUnmapped() { | ||
return !!((0, _flags2.default)(this) & _constants.default.BAM_FMUNMAP); | ||
} | ||
BamRecord.prototype.isMateUnmapped = function () { | ||
return !!(this.flags & constants_1.default.BAM_FMUNMAP); | ||
}; | ||
/** @returns {boolean} true if the read is mapped to the reverse strand */ | ||
}, { | ||
key: "isReverseComplemented", | ||
value: function isReverseComplemented() { | ||
return !!((0, _flags2.default)(this) & _constants.default.BAM_FREVERSE); | ||
} | ||
BamRecord.prototype.isReverseComplemented = function () { | ||
return !!(this.flags & constants_1.default.BAM_FREVERSE); | ||
}; | ||
/** @returns {boolean} true if the mate is mapped to the reverse strand */ | ||
}, { | ||
key: "isMateReverseComplemented", | ||
value: function isMateReverseComplemented() { | ||
return !!((0, _flags2.default)(this) & _constants.default.BAM_FMREVERSE); | ||
} | ||
BamRecord.prototype.isMateReverseComplemented = function () { | ||
return !!(this.flags & constants_1.default.BAM_FMREVERSE); | ||
}; | ||
/** @returns {boolean} true if this is read number 1 in a pair */ | ||
}, { | ||
key: "isRead1", | ||
value: function isRead1() { | ||
return !!((0, _flags2.default)(this) & _constants.default.BAM_FREAD1); | ||
} | ||
BamRecord.prototype.isRead1 = function () { | ||
return !!(this.flags & constants_1.default.BAM_FREAD1); | ||
}; | ||
/** @returns {boolean} true if this is read number 2 in a pair */ | ||
}, { | ||
key: "isRead2", | ||
value: function isRead2() { | ||
return !!((0, _flags2.default)(this) & _constants.default.BAM_FREAD2); | ||
} | ||
BamRecord.prototype.isRead2 = function () { | ||
return !!(this.flags & constants_1.default.BAM_FREAD2); | ||
}; | ||
/** @returns {boolean} true if this is a secondary alignment */ | ||
}, { | ||
key: "isSecondary", | ||
value: function isSecondary() { | ||
return !!((0, _flags2.default)(this) & _constants.default.BAM_FSECONDARY); | ||
} | ||
BamRecord.prototype.isSecondary = function () { | ||
return !!(this.flags & constants_1.default.BAM_FSECONDARY); | ||
}; | ||
/** @returns {boolean} true if this read has failed QC checks */ | ||
}, { | ||
key: "isFailedQc", | ||
value: function isFailedQc() { | ||
return !!((0, _flags2.default)(this) & _constants.default.BAM_FQCFAIL); | ||
} | ||
BamRecord.prototype.isFailedQc = function () { | ||
return !!(this.flags & constants_1.default.BAM_FQCFAIL); | ||
}; | ||
/** @returns {boolean} true if the read is an optical or PCR duplicate */ | ||
}, { | ||
key: "isDuplicate", | ||
value: function isDuplicate() { | ||
return !!((0, _flags2.default)(this) & _constants.default.BAM_FDUP); | ||
} | ||
BamRecord.prototype.isDuplicate = function () { | ||
return !!(this.flags & constants_1.default.BAM_FDUP); | ||
}; | ||
/** @returns {boolean} true if this is a supplementary alignment */ | ||
}, { | ||
key: "isSupplementary", | ||
value: function isSupplementary() { | ||
return !!((0, _flags2.default)(this) & _constants.default.BAM_FSUPPLEMENTARY); | ||
} | ||
}, { | ||
key: "cigar", | ||
value: function cigar() { | ||
if (this.isSegmentUnmapped()) { | ||
return undefined; | ||
} | ||
var _this$bytes2 = this.bytes, | ||
byteArray = _this$bytes2.byteArray, | ||
start = _this$bytes2.start; | ||
var numCigarOps = this.get('_n_cigar_op'); | ||
var p = start + 36 + this.get('_l_read_name'); | ||
var seqLen = this.get('seq_length'); | ||
var cigar = ''; | ||
var lref = 0; // check for CG tag by inspecting whether the CIGAR field | ||
// contains a clip that consumes entire seqLen | ||
var cigop = byteArray.readInt32LE(p); | ||
var lop = cigop >> 4; | ||
var op = CIGAR_DECODER[cigop & 0xf]; | ||
if (op === 'S' && lop === seqLen) { | ||
// if there is a CG the second CIGAR field will | ||
// be a N tag the represents the length on ref | ||
p += 4; | ||
cigop = byteArray.readInt32LE(p); | ||
lop = cigop >> 4; | ||
op = CIGAR_DECODER[cigop & 0xf]; | ||
if (op !== 'N') { | ||
console.warn('CG tag with no N tag'); | ||
BamRecord.prototype.isSupplementary = function () { | ||
return !!(this.flags & constants_1.default.BAM_FSUPPLEMENTARY); | ||
}; | ||
BamRecord.prototype.cigar = function () { | ||
if (this.isSegmentUnmapped()) { | ||
return undefined; | ||
} | ||
this.data.length_on_ref = lop; | ||
return this.get('CG'); | ||
} else { | ||
for (var c = 0; c < numCigarOps; ++c) { | ||
cigop = byteArray.readInt32LE(p); | ||
lop = cigop >> 4; | ||
op = CIGAR_DECODER[cigop & 0xf]; | ||
cigar += lop + op; // soft clip, hard clip, and insertion don't count toward | ||
// the length on the reference | ||
if (op !== 'H' && op !== 'S' && op !== 'I') { | ||
lref += lop; | ||
} | ||
p += 4; | ||
var _a = this.bytes, byteArray = _a.byteArray, start = _a.start; | ||
var numCigarOps = this.get('_n_cigar_op'); | ||
var p = start + 36 + this.get('_l_read_name'); | ||
var seqLen = this.get('seq_length'); | ||
var cigar = ''; | ||
var lref = 0; | ||
// check for CG tag by inspecting whether the CIGAR field | ||
// contains a clip that consumes entire seqLen | ||
var cigop = byteArray.readInt32LE(p); | ||
var lop = cigop >> 4; | ||
var op = CIGAR_DECODER[cigop & 0xf]; | ||
if (op === 'S' && lop === seqLen) { | ||
// if there is a CG the second CIGAR field will | ||
// be a N tag the represents the length on ref | ||
p += 4; | ||
cigop = byteArray.readInt32LE(p); | ||
lop = cigop >> 4; | ||
op = CIGAR_DECODER[cigop & 0xf]; | ||
if (op !== 'N') { | ||
console.warn('CG tag with no N tag'); | ||
} | ||
this.data.length_on_ref = lop; | ||
return this.get('CG'); | ||
} | ||
this.data.length_on_ref = lref; | ||
return cigar; | ||
} | ||
} | ||
}, { | ||
key: "_flags", | ||
value: function _flags() {} | ||
}, { | ||
key: "length_on_ref", | ||
value: function length_on_ref() { | ||
this.get('cigar'); // the length_on_ref is set as a | ||
// side effect of the CIGAR parsing | ||
return this.data.length_on_ref; | ||
} | ||
}, { | ||
key: "_n_cigar_op", | ||
value: function _n_cigar_op() { | ||
return this.get('_flag_nc') & 0xffff; | ||
} | ||
}, { | ||
key: "_l_read_name", | ||
value: function _l_read_name() { | ||
return this.get('_bin_mq_nl') & 0xff; | ||
} | ||
else { | ||
for (var c = 0; c < numCigarOps; ++c) { | ||
cigop = byteArray.readInt32LE(p); | ||
lop = cigop >> 4; | ||
op = CIGAR_DECODER[cigop & 0xf]; | ||
cigar += lop + op; | ||
// soft clip, hard clip, and insertion don't count toward | ||
// the length on the reference | ||
if (op !== 'H' && op !== 'S' && op !== 'I') { | ||
lref += lop; | ||
} | ||
p += 4; | ||
} | ||
this.data.length_on_ref = lref; | ||
return cigar; | ||
} | ||
}; | ||
BamRecord.prototype._flags = function () { }; | ||
BamRecord.prototype.length_on_ref = function () { | ||
this.get('cigar'); // the length_on_ref is set as a | ||
// side effect of the CIGAR parsing | ||
return this.data.length_on_ref; | ||
}; | ||
BamRecord.prototype._n_cigar_op = function () { | ||
return this.get('_flag_nc') & 0xffff; | ||
}; | ||
BamRecord.prototype._l_read_name = function () { | ||
return this.get('_bin_mq_nl') & 0xff; | ||
}; | ||
/** | ||
* number of bytes in the sequence field | ||
*/ | ||
}, { | ||
key: "_seq_bytes", | ||
value: function _seq_bytes() { | ||
return this.get('seq_length') + 1 >> 1; | ||
} | ||
}, { | ||
key: "getReadBases", | ||
value: function getReadBases() { | ||
return this.seq(); | ||
} | ||
}, { | ||
key: "seq", | ||
value: function seq() { | ||
var byteArray = this.bytes.byteArray; | ||
var p = this.bytes.start + 36 + this.get('_l_read_name') + this.get('_n_cigar_op') * 4; | ||
var seqBytes = this.get('_seq_bytes'); | ||
var len = this.get('seq_length'); | ||
var buf = ''; | ||
var i = 0; | ||
for (var j = 0; j < seqBytes; ++j) { | ||
var sb = byteArray[p + j]; | ||
buf += String.fromCharCode(SEQRET_DECODER[(sb & 0xf0) >> 4]); | ||
i++; | ||
if (i < len) { | ||
buf += String.fromCharCode(SEQRET_DECODER[sb & 0x0f]); | ||
i++; | ||
BamRecord.prototype._seq_bytes = function () { | ||
return (this.get('seq_length') + 1) >> 1; | ||
}; | ||
BamRecord.prototype.getReadBases = function () { | ||
return this.seq(); | ||
}; | ||
BamRecord.prototype.seq = function () { | ||
var byteArray = this.bytes.byteArray; | ||
var p = this.bytes.start + | ||
36 + | ||
this.get('_l_read_name') + | ||
this.get('_n_cigar_op') * 4; | ||
var seqBytes = this.get('_seq_bytes'); | ||
var len = this.get('seq_length'); | ||
var buf = ''; | ||
var i = 0; | ||
for (var j = 0; j < seqBytes; ++j) { | ||
var sb = byteArray[p + j]; | ||
buf += String.fromCharCode(SEQRET_DECODER[(sb & 0xf0) >> 4]); | ||
i++; | ||
if (i < len) { | ||
buf += String.fromCharCode(SEQRET_DECODER[sb & 0x0f]); | ||
i++; | ||
} | ||
} | ||
} | ||
return buf; | ||
} // adapted from igv.js | ||
}, { | ||
key: "getPairOrientation", | ||
value: function getPairOrientation() { | ||
if (!this.isSegmentUnmapped() && !this.isMateUnmapped() && this._refID === this._next_refid()) { | ||
var s1 = this.isReverseComplemented() ? 'R' : 'F'; | ||
var s2 = this.isMateReverseComplemented() ? 'R' : 'F'; | ||
var o1 = ' '; | ||
var o2 = ' '; | ||
if (this.isRead1()) { | ||
o1 = '1'; | ||
o2 = '2'; | ||
} else if (this.isRead2()) { | ||
o1 = '2'; | ||
o2 = '1'; | ||
return buf; | ||
}; | ||
// adapted from igv.js | ||
BamRecord.prototype.getPairOrientation = function () { | ||
if (!this.isSegmentUnmapped() && | ||
!this.isMateUnmapped() && | ||
this._refID === this._next_refid()) { | ||
var s1 = this.isReverseComplemented() ? 'R' : 'F'; | ||
var s2 = this.isMateReverseComplemented() ? 'R' : 'F'; | ||
var o1 = ' '; | ||
var o2 = ' '; | ||
if (this.isRead1()) { | ||
o1 = '1'; | ||
o2 = '2'; | ||
} | ||
else if (this.isRead2()) { | ||
o1 = '2'; | ||
o2 = '1'; | ||
} | ||
var tmp = []; | ||
var isize = this.template_length(); | ||
if (isize > 0) { | ||
tmp[0] = s1; | ||
tmp[1] = o1; | ||
tmp[2] = s2; | ||
tmp[3] = o2; | ||
} | ||
else { | ||
tmp[2] = s1; | ||
tmp[3] = o1; | ||
tmp[0] = s2; | ||
tmp[1] = o2; | ||
} | ||
return tmp.join(''); | ||
} | ||
var tmp = []; | ||
var isize = this.template_length(); | ||
if (isize > 0) { | ||
tmp[0] = s1; | ||
tmp[1] = o1; | ||
tmp[2] = s2; | ||
tmp[3] = o2; | ||
} else { | ||
tmp[2] = s1; | ||
tmp[3] = o1; | ||
tmp[0] = s2; | ||
tmp[1] = o2; | ||
} | ||
return tmp.join(''); | ||
} | ||
return null; | ||
} | ||
}, { | ||
key: "_bin_mq_nl", | ||
value: function _bin_mq_nl() { | ||
return this.bytes.byteArray.readInt32LE(this.bytes.start + 12); | ||
} | ||
}, { | ||
key: "_flag_nc", | ||
value: function _flag_nc() { | ||
return this.bytes.byteArray.readInt32LE(this.bytes.start + 16); | ||
} | ||
}, { | ||
key: "seq_length", | ||
value: function seq_length() { | ||
return this.bytes.byteArray.readInt32LE(this.bytes.start + 20); | ||
} | ||
}, { | ||
key: "_next_refid", | ||
value: function _next_refid() { | ||
return this.bytes.byteArray.readInt32LE(this.bytes.start + 24); | ||
} | ||
}, { | ||
key: "_next_pos", | ||
value: function _next_pos() { | ||
return this.bytes.byteArray.readInt32LE(this.bytes.start + 28); | ||
} | ||
}, { | ||
key: "template_length", | ||
value: function template_length() { | ||
return this.bytes.byteArray.readInt32LE(this.bytes.start + 32); | ||
} | ||
}, { | ||
key: "toJSON", | ||
value: function toJSON() { | ||
var _context4, | ||
_this2 = this; | ||
var data = {}; | ||
(0, _forEach.default)(_context4 = (0, _keys.default)(this)).call(_context4, function (k) { | ||
if (k.charAt(0) === '_' || k === 'bytes') { | ||
return; | ||
} //@ts-ignore | ||
data[k] = _this2[k]; | ||
}); | ||
return data; | ||
} | ||
}]); | ||
return BamRecord; | ||
}(); | ||
return null; | ||
}; | ||
BamRecord.prototype._bin_mq_nl = function () { | ||
return this.bytes.byteArray.readInt32LE(this.bytes.start + 12); | ||
}; | ||
BamRecord.prototype._flag_nc = function () { | ||
return this.bytes.byteArray.readInt32LE(this.bytes.start + 16); | ||
}; | ||
BamRecord.prototype.seq_length = function () { | ||
return this.bytes.byteArray.readInt32LE(this.bytes.start + 20); | ||
}; | ||
BamRecord.prototype._next_refid = function () { | ||
return this.bytes.byteArray.readInt32LE(this.bytes.start + 24); | ||
}; | ||
BamRecord.prototype._next_pos = function () { | ||
return this.bytes.byteArray.readInt32LE(this.bytes.start + 28); | ||
}; | ||
BamRecord.prototype.template_length = function () { | ||
return this.bytes.byteArray.readInt32LE(this.bytes.start + 32); | ||
}; | ||
BamRecord.prototype.toJSON = function () { | ||
var _this = this; | ||
var data = {}; | ||
Object.keys(this).forEach(function (k) { | ||
if (k.charAt(0) === '_' || k === 'bytes') { | ||
return; | ||
} | ||
//@ts-ignore | ||
data[k] = _this[k]; | ||
}); | ||
return data; | ||
}; | ||
return BamRecord; | ||
}()); | ||
exports.default = BamRecord; | ||
//# sourceMappingURL=data:application/json;charset=utf-8;base64,{"version":3,"sources":["../src/record.ts"],"names":["SEQRET_DECODER","split","s","charCodeAt","CIGAR_DECODER","BamRecord","args","undefined","data","bytes","start","end","byteArray","_id","fileOffset","_refID","readInt32LE","flags","field","_get","toLowerCase","get","_parseTag","_parseAllTags","tags","isSegmentUnmapped","push","isPaired","_tagList","k","seen","t","lt","mq","qualRaw","join","p","lseq","qseq","Buffer","allocUnsafe","j","isReverseComplemented","isMateUnmapped","isMateReverseComplemented","nl","toString","tagName","_allTagsParsed","_tagOffset","blockEnd","lcTag","tag","String","fromCharCode","type","value","readUInt32LE","readInt8","readUInt8","readInt16LE","readUInt16LE","readFloatLE","cc","Btype","limit","cigop","lop","op","console","warn","cigar","match","toUpperCase","Constants","BAM_FPAIRED","BAM_FPROPER_PAIR","BAM_FUNMAP","BAM_FMUNMAP","BAM_FREVERSE","BAM_FMREVERSE","BAM_FREAD1","BAM_FREAD2","BAM_FSECONDARY","BAM_FQCFAIL","BAM_FDUP","BAM_FSUPPLEMENTARY","numCigarOps","seqLen","lref","length_on_ref","c","seq","seqBytes","len","buf","i","sb","_next_refid","s1","s2","o1","o2","isRead1","isRead2","tmp","isize","template_length","charAt"],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;AAEA;;;;AAEA,IAAMA,cAAc,GAAG,gDAAmBC,KAAnB,CAAyB,EAAzB,kBAAiC,UAAAC,CAAC;AAAA,SAAIA,CAAC,CAACC,UAAF,CAAa,CAAb,CAAJ;AAAA,CAAlC,CAAvB;AACA,IAAMC,aAAa,GAAG,mBAAmBH,KAAnB,CAAyB,EAAzB,CAAtB;AAEA;;;;IAGqBI,S;AASnB,qBAAYC,IAAZ,EAAuB;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA;AAAA,sDAHkBC,SAGlB;AAAA,oDAFM,EAEN;AAAA,0DADE,KACF;AACrB,SAAKC,IAAL,GAAY,EAAZ;AACA,SAAKC,KAAL,GAAa;AACXC,MAAAA,KAAK,EAAEJ,IAAI,CAACG,KAAL,CAAWC,KADP;AAEXC,MAAAA,GAAG,EAAEL,IAAI,CAACG,KAAL,CAAWE,GAFL;AAGXC,MAAAA,SAAS,EAAEN,IAAI,CAACG,KAAL,CAAWG;AAHX,KAAb;AAKA,SAAKC,GAAL,GAAWP,IAAI,CAACQ,UAAhB;AAPqB,sBAQQ,KAAKL,KARb;AAAA,QAQbC,KARa,eAQbA,KARa;AAAA,QAQNE,SARM,eAQNA,SARM;AASrB,SAAKG,MAAL,GAAcH,SAAS,CAACI,WAAV,CAAsBN,KAAK,GAAG,CAA9B,CAAd;AACA,SAAKF,IAAL,CAAUE,KAAV,GAAkBE,SAAS,CAACI,WAAV,CAAsBN,KAAK,GAAG,CAA9B,CAAlB;AACA,SAAKO,KAAL,GAAa,CAACL,SAAS,CAACI,WAAV,CAAsBN,KAAK,GAAG,EAA9B,IAAoC,UAArC,KAAoD,EAAjE;AACD;;;;wBAEGQ,K,EAAe;AACjB;AACA,UAAI,KAAKA,KAAL,CAAJ,EAAiB;AACf;AACA,YAAI,KAAKV,IAAL,CAAUU,KAAV,CAAJ,EAAsB;AACpB,iBAAO,KAAKV,IAAL,CAAUU,KAAV,CAAP;AACD,SAJc,CAKf;;;AACA,aAAKV,IAAL,CAAUU,KAAV,IAAmB,KAAKA,KAAL,GAAnB;AACA,eAAO,KAAKV,IAAL,CAAUU,KAAV,CAAP;AACD;;AACD,aAAO,KAAKC,IAAL,CAAUD,KAAK,CAACE,WAAN,EAAV,CAAP;AACD;;;0BAEK;AACJ,aAAO,KAAKC,GAAL,CAAS,OAAT,KAAqB,KAAKA,GAAL,CAAS,eAAT,KAA6B,KAAKA,GAAL,CAAS,YAAT,CAA7B,IAAuDd,SAA5E,CAAP;AACD;;;6BAEQ;AACP,aAAO,KAAKQ,MAAZ;AACD,K,CAED;AACA;;;;yBACKG,K,EAAe;AAClB,UAAIA,KAAK,IAAI,KAAKV,IAAlB,EAAwB;AACtB,eAAO,KAAKA,IAAL,CAAUU,KAAV,CAAP;AACD;;AACD,WAAKV,IAAL,CAAUU,KAAV,IAAmB,KAAKI,SAAL,CAAeJ,KAAf,CAAnB;AACA,aAAO,KAAKV,IAAL,CAAUU,KAAV,CAAP;AACD;;;4BAEO;AAAA;AAAA;;AACN,WAAKK,aAAL;;AAEA,UAAIC,IAAI,GAAG,CAAC,KAAD,CAAX;;AAEA,UAAI,CAAC,KAAKC,iBAAL,EAAL,EAA+B;AAC7BD,QAAAA,IAAI,CAACE,IAAL,CACE,OADF,EAEE,KAFF,EAGE,QAHF,EAIE,OAJF,EAKE,MALF,EAME,IANF,EAOE,OAPF,EAQE,eARF,EASE,iBATF;AAWD;;AACD,UAAI,KAAKC,QAAL,EAAJ,EAAqB;AACnBH,QAAAA,IAAI,CAACE,IAAL,CAAU,uBAAV,EAAmC,kBAAnC;AACD;;AACDF,MAAAA,IAAI,GAAG,qBAAAA,IAAI,MAAJ,CAAAA,IAAI,EAAQ,KAAKI,QAAL,IAAiB,EAAzB,CAAX;AAEA,2DAAY,KAAKpB,IAAjB,mBAA+B,UAAAqB,CAAC,EAAI;AAClC,YAAIA,CAAC,CAAC,CAAD,CAAD,KAAS,GAAT,IAAgBA,CAAC,KAAK,aAA1B,EAAyC;AACvCL,UAAAA,IAAI,CAACE,IAAL,CAAUG,CAAV;AACD;AACF,OAJD;AAMA,UAAMC,IAAgC,GAAG,EAAzC;AACAN,MAAAA,IAAI,GAAG,qBAAAA,IAAI,MAAJ,CAAAA,IAAI,EAAQ,UAAAO,CAAC,EAAI;AACtB,YAAKA,CAAC,IAAI,KAAI,CAACvB,IAAV,IAAkB,KAAI,CAACA,IAAL,CAAUuB,CAAV,MAAiBxB,SAApC,IAAkDwB,CAAC,KAAK,IAAxD,IAAgEA,CAAC,KAAK,IAA1E,EAAgF;AAC9E,iBAAO,KAAP;AACD;;AAED,YAAMC,EAAE,GAAGD,CAAC,CAACX,WAAF,EAAX;AACA,YAAMlB,CAAC,GAAG4B,IAAI,CAACE,EAAD,CAAd;AACAF,QAAAA,IAAI,CAACE,EAAD,CAAJ,GAAW,IAAX;AACA,eAAO,CAAC9B,CAAR;AACD,OATU,CAAX;AAWA,aAAOsB,IAAP;AACD;;;6BAEQ;AACP,aAAOjB,SAAP;AACD;;;+BAEU;AACT,aAAO,KAAKc,GAAL,CAAS,aAAT,CAAP;AACD;;;yBAEI;AACH,aAAO,KAAKR,GAAZ;AACD,K,CAED;;AACA;;;;;;yBAGK;AACH,UAAMoB,EAAE,GAAG,CAAC,KAAKZ,GAAL,CAAS,YAAT,IAAyB,MAA1B,KAAqC,CAAhD;AACA,aAAOY,EAAE,KAAK,GAAP,GAAa1B,SAAb,GAAyB0B,EAAhC;AACD;;;4BAEO;AACN,aAAO,KAAKZ,GAAL,CAAS,IAAT,CAAP;AACD;;;2BAEM;AAAA;;AACL,8BAAO,KAAKa,OAAL,EAAP,kDAAO,cAAgBC,IAAhB,CAAqB,GAArB,CAAP;AACD;;;8BAES;AACR,UAAI,KAAKV,iBAAL,EAAJ,EAA8B;AAC5B,eAAOlB,SAAP;AACD;;AAHO,UAKAK,SALA,GAKc,KAAKH,KALnB,CAKAG,SALA;AAMR,UAAMwB,CAAC,GACL,KAAK3B,KAAL,CAAWC,KAAX,GACA,EADA,GAEA,KAAKW,GAAL,CAAS,cAAT,CAFA,GAGA,KAAKA,GAAL,CAAS,aAAT,IAA0B,CAH1B,GAIA,KAAKA,GAAL,CAAS,YAAT,CALF;AAMA,UAAMgB,IAAI,GAAG,KAAKhB,GAAL,CAAS,YAAT,CAAb;AACA,UAAMiB,IAAI,GAAGC,MAAM,CAACC,WAAP,CAAmBH,IAAnB,CAAb;;AACA,WAAK,IAAII,CAAC,GAAG,CAAb,EAAgBA,CAAC,GAAGJ,IAApB,EAA0B,EAAEI,CAA5B,EAA+B;AAC7BH,QAAAA,IAAI,CAACG,CAAD,CAAJ,GAAU7B,SAAS,CAACwB,CAAC,GAAGK,CAAL,CAAnB;AACD;;AACD,aAAOH,IAAP;AACD;;;6BAEQ;AACP,aAAO,KAAKI,qBAAL,KAA+B,CAAC,CAAhC,GAAoC,CAA3C;AACD;;;wDAEmC;AAClC,UAAI,KAAKC,cAAL,EAAJ,EAA2B;AACzB,eAAOpC,SAAP;AACD;;AACD,aAAO,KAAKqC,yBAAL,KAAmC,CAAC,CAApC,GAAwC,CAA/C;AACD;;;2BAEM;AACL,aAAO,KAAKvB,GAAL,CAAS,YAAT,CAAP;AACD;;;iCAEY;AACX,UAAMwB,EAAE,GAAG,KAAKxB,GAAL,CAAS,cAAT,CAAX;AACA,aAAO,KAAKZ,KAAL,CAAWG,SAAX,CAAqBkC,QAArB,CACL,OADK,EAEL,KAAKrC,KAAL,CAAWC,KAAX,GAAmB,EAFd,EAGL,KAAKD,KAAL,CAAWC,KAAX,GAAmB,EAAnB,GAAwBmC,EAAxB,GAA6B,CAHxB,CAAP;AAKD;AAED;;;;;;;8BAIUE,O,EAAkB;AAC1B;AACA;AACA;AACA,UAAI,KAAKC,cAAT,EAAyB;AACvB,eAAOzC,SAAP;AACD;;AANyB,UAQlBK,SARkB,GAQJ,KAAKH,KARD,CAQlBG,SARkB;AAS1B,UAAIwB,CAAC,GACH,KAAKa,UAAL,IACA,KAAKxC,KAAL,CAAWC,KAAX,GACE,EADF,GAEE,KAAKW,GAAL,CAAS,cAAT,CAFF,GAGE,KAAKA,GAAL,CAAS,aAAT,IAA0B,CAH5B,GAIE,KAAKA,GAAL,CAAS,YAAT,CAJF,GAKE,KAAKA,GAAL,CAAS,YAAT,CAPJ;AASA,UAAM6B,QAAQ,GAAG,KAAKzC,KAAL,CAAWE,GAA5B;AACA,UAAIwC,KAAJ;;AACA,aAAOf,CAAC,GAAGc,QAAJ,IAAgBC,KAAK,KAAKJ,OAAjC,EAA0C;AACxC,YAAMK,GAAG,GAAGC,MAAM,CAACC,YAAP,CAAoB1C,SAAS,CAACwB,CAAD,CAA7B,EAAkCxB,SAAS,CAACwB,CAAC,GAAG,CAAL,CAA3C,CAAZ;AACAe,QAAAA,KAAK,GAAGC,GAAG,CAAChC,WAAJ,EAAR;AACA,YAAMmC,IAAI,GAAGF,MAAM,CAACC,YAAP,CAAoB1C,SAAS,CAACwB,CAAC,GAAG,CAAL,CAA7B,CAAb;AACAA,QAAAA,CAAC,IAAI,CAAL;AAEA,YAAIoB,KAAK,SAAT;;AACA,gBAAQD,IAAR;AACE,eAAK,GAAL;AACEC,YAAAA,KAAK,GAAGH,MAAM,CAACC,YAAP,CAAoB1C,SAAS,CAACwB,CAAD,CAA7B,CAAR;AACAA,YAAAA,CAAC,IAAI,CAAL;AACA;;AACF,eAAK,GAAL;AACEoB,YAAAA,KAAK,GAAG5C,SAAS,CAACI,WAAV,CAAsBoB,CAAtB,CAAR;AACAA,YAAAA,CAAC,IAAI,CAAL;AACA;;AACF,eAAK,GAAL;AACEoB,YAAAA,KAAK,GAAG5C,SAAS,CAAC6C,YAAV,CAAuBrB,CAAvB,CAAR;AACAA,YAAAA,CAAC,IAAI,CAAL;AACA;;AACF,eAAK,GAAL;AACEoB,YAAAA,KAAK,GAAG5C,SAAS,CAAC8C,QAAV,CAAmBtB,CAAnB,CAAR;AACAA,YAAAA,CAAC,IAAI,CAAL;AACA;;AACF,eAAK,GAAL;AACEoB,YAAAA,KAAK,GAAG5C,SAAS,CAAC+C,SAAV,CAAoBvB,CAApB,CAAR;AACAA,YAAAA,CAAC,IAAI,CAAL;AACA;;AACF,eAAK,GAAL;AACEoB,YAAAA,KAAK,GAAG5C,SAAS,CAACgD,WAAV,CAAsBxB,CAAtB,CAAR;AACAA,YAAAA,CAAC,IAAI,CAAL;AACA;;AACF,eAAK,GAAL;AACEoB,YAAAA,KAAK,GAAG5C,SAAS,CAACiD,YAAV,CAAuBzB,CAAvB,CAAR;AACAA,YAAAA,CAAC,IAAI,CAAL;AACA;;AACF,eAAK,GAAL;AACEoB,YAAAA,KAAK,GAAG5C,SAAS,CAACkD,WAAV,CAAsB1B,CAAtB,CAAR;AACAA,YAAAA,CAAC,IAAI,CAAL;AACA;;AACF,eAAK,GAAL;AACA,eAAK,GAAL;AACEoB,YAAAA,KAAK,GAAG,EAAR;;AACA,mBAAOpB,CAAC,IAAIc,QAAZ,EAAsB;AACpB,kBAAMa,EAAE,GAAGnD,SAAS,CAACwB,CAAC,EAAF,CAApB;;AACA,kBAAI2B,EAAE,KAAK,CAAX,EAAc;AACZ;AACD,eAFD,MAEO;AACLP,gBAAAA,KAAK,IAAIH,MAAM,CAACC,YAAP,CAAoBS,EAApB,CAAT;AACD;AACF;;AACD;;AACF,eAAK,GAAL;AAAU;AACRP,cAAAA,KAAK,GAAG,EAAR;AACA,kBAAMO,GAAE,GAAGnD,SAAS,CAACwB,CAAC,EAAF,CAApB;AACA,kBAAM4B,KAAK,GAAGX,MAAM,CAACC,YAAP,CAAoBS,GAApB,CAAd;AACA,kBAAME,KAAK,GAAGrD,SAAS,CAACI,WAAV,CAAsBoB,CAAtB,CAAd;AACAA,cAAAA,CAAC,IAAI,CAAL;;AACA,kBAAI4B,KAAK,KAAK,GAAd,EAAmB;AACjB,oBAAIZ,GAAG,KAAK,IAAZ,EAAkB;AAChB,uBAAK,IAAIvB,CAAC,GAAG,CAAb,EAAgBA,CAAC,GAAGoC,KAApB,EAA2BpC,CAAC,EAA5B,EAAgC;AAC9B,wBAAMqC,KAAK,GAAGtD,SAAS,CAACI,WAAV,CAAsBoB,CAAtB,CAAd;AACA,wBAAM+B,GAAG,GAAGD,KAAK,IAAI,CAArB;AACA,wBAAME,EAAE,GAAGhE,aAAa,CAAC8D,KAAK,GAAG,GAAT,CAAxB;AACAV,oBAAAA,KAAK,IAAIW,GAAG,GAAGC,EAAf;AACAhC,oBAAAA,CAAC,IAAI,CAAL;AACD;AACF,iBARD,MAQO;AACL,uBAAK,IAAIP,EAAC,GAAG,CAAb,EAAgBA,EAAC,GAAGoC,KAApB,EAA2BpC,EAAC,EAA5B,EAAgC;AAC9B2B,oBAAAA,KAAK,IAAI5C,SAAS,CAACI,WAAV,CAAsBoB,CAAtB,CAAT;;AACA,wBAAIP,EAAC,GAAG,CAAJ,GAAQoC,KAAZ,EAAmB;AACjBT,sBAAAA,KAAK,IAAI,GAAT;AACD;;AACDpB,oBAAAA,CAAC,IAAI,CAAL;AACD;AACF;AACF;;AACD,kBAAI4B,KAAK,KAAK,GAAd,EAAmB;AACjB,oBAAIZ,GAAG,KAAK,IAAZ,EAAkB;AAChB,uBAAK,IAAIvB,GAAC,GAAG,CAAb,EAAgBA,GAAC,GAAGoC,KAApB,EAA2BpC,GAAC,EAA5B,EAAgC;AAC9B,wBAAMqC,MAAK,GAAGtD,SAAS,CAAC6C,YAAV,CAAuBrB,CAAvB,CAAd;;AACA,wBAAM+B,IAAG,GAAGD,MAAK,IAAI,CAArB;;AACA,wBAAME,GAAE,GAAGhE,aAAa,CAAC8D,MAAK,GAAG,GAAT,CAAxB;AACAV,oBAAAA,KAAK,IAAIW,IAAG,GAAGC,GAAf;AACAhC,oBAAAA,CAAC,IAAI,CAAL;AACD;AACF,iBARD,MAQO;AACL,uBAAK,IAAIP,GAAC,GAAG,CAAb,EAAgBA,GAAC,GAAGoC,KAApB,EAA2BpC,GAAC,EAA5B,EAAgC;AAC9B2B,oBAAAA,KAAK,IAAI5C,SAAS,CAAC6C,YAAV,CAAuBrB,CAAvB,CAAT;;AACA,wBAAIP,GAAC,GAAG,CAAJ,GAAQoC,KAAZ,EAAmB;AACjBT,sBAAAA,KAAK,IAAI,GAAT;AACD;;AACDpB,oBAAAA,CAAC,IAAI,CAAL;AACD;AACF;AACF;;AACD,kBAAI4B,KAAK,KAAK,GAAd,EAAmB;AACjB,qBAAK,IAAInC,GAAC,GAAG,CAAb,EAAgBA,GAAC,GAAGoC,KAApB,EAA2BpC,GAAC,EAA5B,EAAgC;AAC9B2B,kBAAAA,KAAK,IAAI5C,SAAS,CAACgD,WAAV,CAAsBxB,CAAtB,CAAT;;AACA,sBAAIP,GAAC,GAAG,CAAJ,GAAQoC,KAAZ,EAAmB;AACjBT,oBAAAA,KAAK,IAAI,GAAT;AACD;;AACDpB,kBAAAA,CAAC,IAAI,CAAL;AACD;AACF;;AACD,kBAAI4B,KAAK,KAAK,GAAd,EAAmB;AACjB,qBAAK,IAAInC,GAAC,GAAG,CAAb,EAAgBA,GAAC,GAAGoC,KAApB,EAA2BpC,GAAC,EAA5B,EAAgC;AAC9B2B,kBAAAA,KAAK,IAAI5C,SAAS,CAACiD,YAAV,CAAuBzB,CAAvB,CAAT;;AACA,sBAAIP,GAAC,GAAG,CAAJ,GAAQoC,KAAZ,EAAmB;AACjBT,oBAAAA,KAAK,IAAI,GAAT;AACD;;AACDpB,kBAAAA,CAAC,IAAI,CAAL;AACD;AACF;;AACD,kBAAI4B,KAAK,KAAK,GAAd,EAAmB;AACjB,qBAAK,IAAInC,GAAC,GAAG,CAAb,EAAgBA,GAAC,GAAGoC,KAApB,EAA2BpC,GAAC,EAA5B,EAAgC;AAC9B2B,kBAAAA,KAAK,IAAI5C,SAAS,CAAC8C,QAAV,CAAmBtB,CAAnB,CAAT;;AACA,sBAAIP,GAAC,GAAG,CAAJ,GAAQoC,KAAZ,EAAmB;AACjBT,oBAAAA,KAAK,IAAI,GAAT;AACD;;AACDpB,kBAAAA,CAAC,IAAI,CAAL;AACD;AACF;;AACD,kBAAI4B,KAAK,KAAK,GAAd,EAAmB;AACjB,qBAAK,IAAInC,GAAC,GAAG,CAAb,EAAgBA,GAAC,GAAGoC,KAApB,EAA2BpC,GAAC,EAA5B,EAAgC;AAC9B2B,kBAAAA,KAAK,IAAI5C,SAAS,CAAC+C,SAAV,CAAoBvB,CAApB,CAAT;;AACA,sBAAIP,GAAC,GAAG,CAAJ,GAAQoC,KAAZ,EAAmB;AACjBT,oBAAAA,KAAK,IAAI,GAAT;AACD;;AACDpB,kBAAAA,CAAC,IAAI,CAAL;AACD;AACF;;AACD,kBAAI4B,KAAK,KAAK,GAAd,EAAmB;AACjB,qBAAK,IAAInC,GAAC,GAAG,CAAb,EAAgBA,GAAC,GAAGoC,KAApB,EAA2BpC,GAAC,EAA5B,EAAgC;AAC9B2B,kBAAAA,KAAK,IAAI5C,SAAS,CAACkD,WAAV,CAAsB1B,CAAtB,CAAT;;AACA,sBAAIP,GAAC,GAAG,CAAJ,GAAQoC,KAAZ,EAAmB;AACjBT,oBAAAA,KAAK,IAAI,GAAT;AACD;;AACDpB,kBAAAA,CAAC,IAAI,CAAL;AACD;AACF;;AACD;AACD;;AACD;AACEiC,YAAAA,OAAO,CAACC,IAAR,iCAAsCf,IAAtC;AACAC,YAAAA,KAAK,GAAGjD,SAAR;AACA6B,YAAAA,CAAC,GAAGc,QAAJ;AAAa;AA3IjB;;AA8IA,aAAKD,UAAL,GAAkBb,CAAlB;;AAEA,aAAKR,QAAL,CAAcF,IAAd,CAAmB0B,GAAnB;;AACA,YAAID,KAAK,KAAKJ,OAAd,EAAuB;AACrB,iBAAOS,KAAP;AACD;;AAED,aAAKhD,IAAL,CAAU2C,KAAV,IAAmBK,KAAnB;AACD;;AACD,WAAKR,cAAL,GAAsB,IAAtB;AACA,aAAOzC,SAAP;AACD;;;oCAEe;AACd,WAAKe,SAAL,CAAe,EAAf;AACD;;;gCAEWiD,K,EAAe;AAAA;;AACzB,aACE;AACA,sCAAAA,KAAK,CAACC,KAAN,CAAY,QAAZ,mBAA0B,UAACJ,EAAD;AAAA,iBAAgB,CAACA,EAAE,CAACI,KAAH,CAAS,IAAT,EAAe,CAAf,EAAkBC,WAAlB,EAAD,EAAkC,wBAASL,EAAT,EAAa,EAAb,CAAlC,CAAhB;AAAA,SAA1B;AAFF;AAID;AAED;;;;;;+BAGW;AACT,aAAO,CAAC,EAAE,6BAAaM,mBAAUC,WAAzB,CAAR;AACD;AAED;;;;uCACmB;AACjB,aAAO,CAAC,EAAE,6BAAaD,mBAAUE,gBAAzB,CAAR;AACD;AAED;;;;wCACoB;AAClB,aAAO,CAAC,EAAE,6BAAaF,mBAAUG,UAAzB,CAAR;AACD;AAED;;;;qCACiB;AACf,aAAO,CAAC,EAAE,6BAAaH,mBAAUI,WAAzB,CAAR;AACD;AAED;;;;4CACwB;AACtB,aAAO,CAAC,EAAE,6BAAaJ,mBAAUK,YAAzB,CAAR;AACD;AAED;;;;gDAC4B;AAC1B,aAAO,CAAC,EAAE,6BAAaL,mBAAUM,aAAzB,CAAR;AACD;AAED;;;;8BACU;AACR,aAAO,CAAC,EAAE,6BAAaN,mBAAUO,UAAzB,CAAR;AACD;AAED;;;;8BACU;AACR,aAAO,CAAC,EAAE,6BAAaP,mBAAUQ,UAAzB,CAAR;AACD;AAED;;;;kCACc;AACZ,aAAO,CAAC,EAAE,6BAAaR,mBAAUS,cAAzB,CAAR;AACD;AAED;;;;iCACa;AACX,aAAO,CAAC,EAAE,6BAAaT,mBAAUU,WAAzB,CAAR;AACD;AAED;;;;kCACc;AACZ,aAAO,CAAC,EAAE,6BAAaV,mBAAUW,QAAzB,CAAR;AACD;AAED;;;;sCACkB;AAChB,aAAO,CAAC,EAAE,6BAAaX,mBAAUY,kBAAzB,CAAR;AACD;;;4BAEO;AACN,UAAI,KAAK7D,iBAAL,EAAJ,EAA8B;AAC5B,eAAOlB,SAAP;AACD;;AAHK,yBAKuB,KAAKE,KAL5B;AAAA,UAKEG,SALF,gBAKEA,SALF;AAAA,UAKaF,KALb,gBAKaA,KALb;AAMN,UAAM6E,WAAW,GAAG,KAAKlE,GAAL,CAAS,aAAT,CAApB;AACA,UAAIe,CAAC,GAAG1B,KAAK,GAAG,EAAR,GAAa,KAAKW,GAAL,CAAS,cAAT,CAArB;AACA,UAAMmE,MAAM,GAAG,KAAKnE,GAAL,CAAS,YAAT,CAAf;AACA,UAAIkD,KAAK,GAAG,EAAZ;AACA,UAAIkB,IAAI,GAAG,CAAX,CAVM,CAYN;AACA;;AACA,UAAIvB,KAAK,GAAGtD,SAAS,CAACI,WAAV,CAAsBoB,CAAtB,CAAZ;AACA,UAAI+B,GAAG,GAAGD,KAAK,IAAI,CAAnB;AACA,UAAIE,EAAE,GAAGhE,aAAa,CAAC8D,KAAK,GAAG,GAAT,CAAtB;;AACA,UAAIE,EAAE,KAAK,GAAP,IAAcD,GAAG,KAAKqB,MAA1B,EAAkC;AAChC;AACA;AACApD,QAAAA,CAAC,IAAI,CAAL;AACA8B,QAAAA,KAAK,GAAGtD,SAAS,CAACI,WAAV,CAAsBoB,CAAtB,CAAR;AACA+B,QAAAA,GAAG,GAAGD,KAAK,IAAI,CAAf;AACAE,QAAAA,EAAE,GAAGhE,aAAa,CAAC8D,KAAK,GAAG,GAAT,CAAlB;;AACA,YAAIE,EAAE,KAAK,GAAX,EAAgB;AACdC,UAAAA,OAAO,CAACC,IAAR,CAAa,sBAAb;AACD;;AACD,aAAK9D,IAAL,CAAUkF,aAAV,GAA0BvB,GAA1B;AACA,eAAO,KAAK9C,GAAL,CAAS,IAAT,CAAP;AACD,OAZD,MAYO;AACL,aAAK,IAAIsE,CAAC,GAAG,CAAb,EAAgBA,CAAC,GAAGJ,WAApB,EAAiC,EAAEI,CAAnC,EAAsC;AACpCzB,UAAAA,KAAK,GAAGtD,SAAS,CAACI,WAAV,CAAsBoB,CAAtB,CAAR;AACA+B,UAAAA,GAAG,GAAGD,KAAK,IAAI,CAAf;AACAE,UAAAA,EAAE,GAAGhE,aAAa,CAAC8D,KAAK,GAAG,GAAT,CAAlB;AACAK,UAAAA,KAAK,IAAIJ,GAAG,GAAGC,EAAf,CAJoC,CAMpC;AACA;;AACA,cAAIA,EAAE,KAAK,GAAP,IAAcA,EAAE,KAAK,GAArB,IAA4BA,EAAE,KAAK,GAAvC,EAA4C;AAC1CqB,YAAAA,IAAI,IAAItB,GAAR;AACD;;AAED/B,UAAAA,CAAC,IAAI,CAAL;AACD;;AAED,aAAK5B,IAAL,CAAUkF,aAAV,GAA0BD,IAA1B;AACA,eAAOlB,KAAP;AACD;AACF;;;6BAEQ,CAAE;;;oCAEK;AACd,WAAKlD,GAAL,CAAS,OAAT,EADc,CACI;AAClB;;AACA,aAAO,KAAKb,IAAL,CAAUkF,aAAjB;AACD;;;kCAEa;AACZ,aAAO,KAAKrE,GAAL,CAAS,UAAT,IAAuB,MAA9B;AACD;;;mCAEc;AACb,aAAO,KAAKA,GAAL,CAAS,YAAT,IAAyB,IAAhC;AACD;AAED;;;;;;iCAGa;AACX,aAAQ,KAAKA,GAAL,CAAS,YAAT,IAAyB,CAA1B,IAAgC,CAAvC;AACD;;;mCAEc;AACb,aAAO,KAAKuE,GAAL,EAAP;AACD;;;0BAEK;AAAA,UACIhF,SADJ,GACkB,KAAKH,KADvB,CACIG,SADJ;AAEJ,UAAMwB,CAAC,GAAG,KAAK3B,KAAL,CAAWC,KAAX,GAAmB,EAAnB,GAAwB,KAAKW,GAAL,CAAS,cAAT,CAAxB,GAAmD,KAAKA,GAAL,CAAS,aAAT,IAA0B,CAAvF;AACA,UAAMwE,QAAQ,GAAG,KAAKxE,GAAL,CAAS,YAAT,CAAjB;AACA,UAAMyE,GAAG,GAAG,KAAKzE,GAAL,CAAS,YAAT,CAAZ;AACA,UAAI0E,GAAG,GAAG,EAAV;AACA,UAAIC,CAAC,GAAG,CAAR;;AACA,WAAK,IAAIvD,CAAC,GAAG,CAAb,EAAgBA,CAAC,GAAGoD,QAApB,EAA8B,EAAEpD,CAAhC,EAAmC;AACjC,YAAMwD,EAAE,GAAGrF,SAAS,CAACwB,CAAC,GAAGK,CAAL,CAApB;AACAsD,QAAAA,GAAG,IAAI1C,MAAM,CAACC,YAAP,CAAoBtD,cAAc,CAAC,CAACiG,EAAE,GAAG,IAAN,KAAe,CAAhB,CAAlC,CAAP;AACAD,QAAAA,CAAC;;AACD,YAAIA,CAAC,GAAGF,GAAR,EAAa;AACXC,UAAAA,GAAG,IAAI1C,MAAM,CAACC,YAAP,CAAoBtD,cAAc,CAACiG,EAAE,GAAG,IAAN,CAAlC,CAAP;AACAD,UAAAA,CAAC;AACF;AACF;;AACD,aAAOD,GAAP;AACD,K,CAED;;;;yCACqB;AACnB,UAAI,CAAC,KAAKtE,iBAAL,EAAD,IAA6B,CAAC,KAAKkB,cAAL,EAA9B,IAAuD,KAAK5B,MAAL,KAAgB,KAAKmF,WAAL,EAA3E,EAA+F;AAC7F,YAAMC,EAAE,GAAG,KAAKzD,qBAAL,KAA+B,GAA/B,GAAqC,GAAhD;AACA,YAAM0D,EAAE,GAAG,KAAKxD,yBAAL,KAAmC,GAAnC,GAAyC,GAApD;AACA,YAAIyD,EAAE,GAAG,GAAT;AACA,YAAIC,EAAE,GAAG,GAAT;;AACA,YAAI,KAAKC,OAAL,EAAJ,EAAoB;AAClBF,UAAAA,EAAE,GAAG,GAAL;AACAC,UAAAA,EAAE,GAAG,GAAL;AACD,SAHD,MAGO,IAAI,KAAKE,OAAL,EAAJ,EAAoB;AACzBH,UAAAA,EAAE,GAAG,GAAL;AACAC,UAAAA,EAAE,GAAG,GAAL;AACD;;AAED,YAAMG,GAAG,GAAG,EAAZ;AACA,YAAMC,KAAK,GAAG,KAAKC,eAAL,EAAd;;AACA,YAAID,KAAK,GAAG,CAAZ,EAAe;AACbD,UAAAA,GAAG,CAAC,CAAD,CAAH,GAASN,EAAT;AACAM,UAAAA,GAAG,CAAC,CAAD,CAAH,GAASJ,EAAT;AACAI,UAAAA,GAAG,CAAC,CAAD,CAAH,GAASL,EAAT;AACAK,UAAAA,GAAG,CAAC,CAAD,CAAH,GAASH,EAAT;AACD,SALD,MAKO;AACLG,UAAAA,GAAG,CAAC,CAAD,CAAH,GAASN,EAAT;AACAM,UAAAA,GAAG,CAAC,CAAD,CAAH,GAASJ,EAAT;AACAI,UAAAA,GAAG,CAAC,CAAD,CAAH,GAASL,EAAT;AACAK,UAAAA,GAAG,CAAC,CAAD,CAAH,GAASH,EAAT;AACD;;AACD,eAAOG,GAAG,CAACtE,IAAJ,CAAS,EAAT,CAAP;AACD;;AACD,aAAO,IAAP;AACD;;;iCAEY;AACX,aAAO,KAAK1B,KAAL,CAAWG,SAAX,CAAqBI,WAArB,CAAiC,KAAKP,KAAL,CAAWC,KAAX,GAAmB,EAApD,CAAP;AACD;;;+BAEU;AACT,aAAO,KAAKD,KAAL,CAAWG,SAAX,CAAqBI,WAArB,CAAiC,KAAKP,KAAL,CAAWC,KAAX,GAAmB,EAApD,CAAP;AACD;;;iCAEY;AACX,aAAO,KAAKD,KAAL,CAAWG,SAAX,CAAqBI,WAArB,CAAiC,KAAKP,KAAL,CAAWC,KAAX,GAAmB,EAApD,CAAP;AACD;;;kCAEa;AACZ,aAAO,KAAKD,KAAL,CAAWG,SAAX,CAAqBI,WAArB,CAAiC,KAAKP,KAAL,CAAWC,KAAX,GAAmB,EAApD,CAAP;AACD;;;gCAEW;AACV,aAAO,KAAKD,KAAL,CAAWG,SAAX,CAAqBI,WAArB,CAAiC,KAAKP,KAAL,CAAWC,KAAX,GAAmB,EAApD,CAAP;AACD;;;sCAEiB;AAChB,aAAO,KAAKD,KAAL,CAAWG,SAAX,CAAqBI,WAArB,CAAiC,KAAKP,KAAL,CAAWC,KAAX,GAAmB,EAApD,CAAP;AACD;;;6BAEQ;AAAA;AAAA;;AACP,UAAMF,IAA4B,GAAG,EAArC;AACA,2DAAY,IAAZ,mBAA0B,UAAAqB,CAAC,EAAI;AAC7B,YAAIA,CAAC,CAAC+E,MAAF,CAAS,CAAT,MAAgB,GAAhB,IAAuB/E,CAAC,KAAK,OAAjC,EAA0C;AACxC;AACD,SAH4B,CAI7B;;;AACArB,QAAAA,IAAI,CAACqB,CAAD,CAAJ,GAAU,MAAI,CAACA,CAAD,CAAd;AACD,OAND;AAQA,aAAOrB,IAAP;AACD","sourcesContent":["/* eslint-disable @typescript-eslint/camelcase */\n/* eslint-disable @typescript-eslint/no-empty-function */\nimport Constants from './constants'\n\nconst SEQRET_DECODER = '=ACMGRSVTWYHKDBN'.split('').map(s => s.charCodeAt(0))\nconst CIGAR_DECODER = 'MIDNSHP=X???????'.split('')\n\n/**\n * Class of each BAM record returned by this API.\n */\nexport default class BamRecord {\n  private data: any\n  private bytes: any\n  private flags: any\n  private _id: number\n  private _refID: number\n  private _tagOffset: number | undefined = undefined\n  private _tagList: string[] = []\n  private _allTagsParsed = false\n  constructor(args: any) {\n    this.data = {}\n    this.bytes = {\n      start: args.bytes.start,\n      end: args.bytes.end,\n      byteArray: args.bytes.byteArray,\n    }\n    this._id = args.fileOffset\n    const { start, byteArray } = this.bytes\n    this._refID = byteArray.readInt32LE(start + 4)\n    this.data.start = byteArray.readInt32LE(start + 8)\n    this.flags = (byteArray.readInt32LE(start + 16) & 0xffff0000) >> 16\n  }\n\n  get(field: string) {\n    //@ts-ignore\n    if (this[field]) {\n      //@ts-ignore\n      if (this.data[field]) {\n        return this.data[field]\n      }\n      //@ts-ignore\n      this.data[field] = this[field]()\n      return this.data[field]\n    }\n    return this._get(field.toLowerCase())\n  }\n\n  end() {\n    return this.get('start') + (this.get('length_on_ref') || this.get('seq_length') || undefined)\n  }\n\n  seq_id() {\n    return this._refID\n  }\n\n  // same as get(), except requires lower-case arguments.  used\n  // internally to save lots of calls to field.toLowerCase()\n  _get(field: string) {\n    if (field in this.data) {\n      return this.data[field]\n    }\n    this.data[field] = this._parseTag(field)\n    return this.data[field]\n  }\n\n  _tags() {\n    this._parseAllTags()\n\n    let tags = ['seq']\n\n    if (!this.isSegmentUnmapped()) {\n      tags.push(\n        'start',\n        'end',\n        'strand',\n        'score',\n        'qual',\n        'MQ',\n        'CIGAR',\n        'length_on_ref',\n        'template_length',\n      )\n    }\n    if (this.isPaired()) {\n      tags.push('next_segment_position', 'pair_orientation')\n    }\n    tags = tags.concat(this._tagList || [])\n\n    Object.keys(this.data).forEach(k => {\n      if (k[0] !== '_' && k !== 'next_seq_id') {\n        tags.push(k)\n      }\n    })\n\n    const seen: { [key: string]: boolean } = {}\n    tags = tags.filter(t => {\n      if ((t in this.data && this.data[t] === undefined) || t === 'CG' || t === 'cg') {\n        return false\n      }\n\n      const lt = t.toLowerCase()\n      const s = seen[lt]\n      seen[lt] = true\n      return !s\n    })\n\n    return tags\n  }\n\n  parent() {\n    return undefined\n  }\n\n  children() {\n    return this.get('subfeatures')\n  }\n\n  id() {\n    return this._id\n  }\n\n  // special parsers\n  /**\n   * Mapping quality score.\n   */\n  mq() {\n    const mq = (this.get('_bin_mq_nl') & 0xff00) >> 8\n    return mq === 255 ? undefined : mq\n  }\n\n  score() {\n    return this.get('mq')\n  }\n\n  qual() {\n    return this.qualRaw()?.join(' ')\n  }\n\n  qualRaw() {\n    if (this.isSegmentUnmapped()) {\n      return undefined\n    }\n\n    const { byteArray } = this.bytes\n    const p =\n      this.bytes.start +\n      36 +\n      this.get('_l_read_name') +\n      this.get('_n_cigar_op') * 4 +\n      this.get('_seq_bytes')\n    const lseq = this.get('seq_length')\n    const qseq = Buffer.allocUnsafe(lseq)\n    for (let j = 0; j < lseq; ++j) {\n      qseq[j] = byteArray[p + j]\n    }\n    return qseq\n  }\n\n  strand() {\n    return this.isReverseComplemented() ? -1 : 1\n  }\n\n  multi_segment_next_segment_strand() {\n    if (this.isMateUnmapped()) {\n      return undefined\n    }\n    return this.isMateReverseComplemented() ? -1 : 1\n  }\n\n  name() {\n    return this.get('_read_name')\n  }\n\n  _read_name() {\n    const nl = this.get('_l_read_name')\n    return this.bytes.byteArray.toString(\n      'ascii',\n      this.bytes.start + 36,\n      this.bytes.start + 36 + nl - 1,\n    )\n  }\n\n  /**\n   * Get the value of a tag, parsing the tags as far as necessary.\n   * Only called if we have not already parsed that field.\n   */\n  _parseTag(tagName?: string) {\n    // if all of the tags have been parsed and we're still being\n    // called, we already know that we have no such tag, because\n    // it would already have been cached.\n    if (this._allTagsParsed) {\n      return undefined\n    }\n\n    const { byteArray } = this.bytes\n    let p =\n      this._tagOffset ||\n      this.bytes.start +\n        36 +\n        this.get('_l_read_name') +\n        this.get('_n_cigar_op') * 4 +\n        this.get('_seq_bytes') +\n        this.get('seq_length')\n\n    const blockEnd = this.bytes.end\n    let lcTag\n    while (p < blockEnd && lcTag !== tagName) {\n      const tag = String.fromCharCode(byteArray[p], byteArray[p + 1])\n      lcTag = tag.toLowerCase()\n      const type = String.fromCharCode(byteArray[p + 2])\n      p += 3\n\n      let value\n      switch (type) {\n        case 'A':\n          value = String.fromCharCode(byteArray[p])\n          p += 1\n          break\n        case 'i':\n          value = byteArray.readInt32LE(p)\n          p += 4\n          break\n        case 'I':\n          value = byteArray.readUInt32LE(p)\n          p += 4\n          break\n        case 'c':\n          value = byteArray.readInt8(p)\n          p += 1\n          break\n        case 'C':\n          value = byteArray.readUInt8(p)\n          p += 1\n          break\n        case 's':\n          value = byteArray.readInt16LE(p)\n          p += 2\n          break\n        case 'S':\n          value = byteArray.readUInt16LE(p)\n          p += 2\n          break\n        case 'f':\n          value = byteArray.readFloatLE(p)\n          p += 4\n          break\n        case 'Z':\n        case 'H':\n          value = ''\n          while (p <= blockEnd) {\n            const cc = byteArray[p++]\n            if (cc === 0) {\n              break\n            } else {\n              value += String.fromCharCode(cc)\n            }\n          }\n          break\n        case 'B': {\n          value = ''\n          const cc = byteArray[p++]\n          const Btype = String.fromCharCode(cc)\n          const limit = byteArray.readInt32LE(p)\n          p += 4\n          if (Btype === 'i') {\n            if (tag === 'CG') {\n              for (let k = 0; k < limit; k++) {\n                const cigop = byteArray.readInt32LE(p)\n                const lop = cigop >> 4\n                const op = CIGAR_DECODER[cigop & 0xf]\n                value += lop + op\n                p += 4\n              }\n            } else {\n              for (let k = 0; k < limit; k++) {\n                value += byteArray.readInt32LE(p)\n                if (k + 1 < limit) {\n                  value += ','\n                }\n                p += 4\n              }\n            }\n          }\n          if (Btype === 'I') {\n            if (tag === 'CG') {\n              for (let k = 0; k < limit; k++) {\n                const cigop = byteArray.readUInt32LE(p)\n                const lop = cigop >> 4\n                const op = CIGAR_DECODER[cigop & 0xf]\n                value += lop + op\n                p += 4\n              }\n            } else {\n              for (let k = 0; k < limit; k++) {\n                value += byteArray.readUInt32LE(p)\n                if (k + 1 < limit) {\n                  value += ','\n                }\n                p += 4\n              }\n            }\n          }\n          if (Btype === 's') {\n            for (let k = 0; k < limit; k++) {\n              value += byteArray.readInt16LE(p)\n              if (k + 1 < limit) {\n                value += ','\n              }\n              p += 2\n            }\n          }\n          if (Btype === 'S') {\n            for (let k = 0; k < limit; k++) {\n              value += byteArray.readUInt16LE(p)\n              if (k + 1 < limit) {\n                value += ','\n              }\n              p += 2\n            }\n          }\n          if (Btype === 'c') {\n            for (let k = 0; k < limit; k++) {\n              value += byteArray.readInt8(p)\n              if (k + 1 < limit) {\n                value += ','\n              }\n              p += 1\n            }\n          }\n          if (Btype === 'C') {\n            for (let k = 0; k < limit; k++) {\n              value += byteArray.readUInt8(p)\n              if (k + 1 < limit) {\n                value += ','\n              }\n              p += 1\n            }\n          }\n          if (Btype === 'f') {\n            for (let k = 0; k < limit; k++) {\n              value += byteArray.readFloatLE(p)\n              if (k + 1 < limit) {\n                value += ','\n              }\n              p += 4\n            }\n          }\n          break\n        }\n        default:\n          console.warn(`Unknown BAM tag type '${type}', tags may be incomplete`)\n          value = undefined\n          p = blockEnd // stop parsing tags\n      }\n\n      this._tagOffset = p\n\n      this._tagList.push(tag)\n      if (lcTag === tagName) {\n        return value\n      }\n\n      this.data[lcTag] = value\n    }\n    this._allTagsParsed = true\n    return undefined\n  }\n\n  _parseAllTags() {\n    this._parseTag('')\n  }\n\n  _parseCigar(cigar: string) {\n    return (\n      //@ts-ignore\n      cigar.match(/\\d+\\D/g).map((op: string) => [op.match(/\\D/)[0].toUpperCase(), parseInt(op, 10)])\n    )\n  }\n\n  /**\n   * @returns {boolean} true if the read is paired, regardless of whether both segments are mapped\n   */\n  isPaired() {\n    return !!(this.flags & Constants.BAM_FPAIRED)\n  }\n\n  /** @returns {boolean} true if the read is paired, and both segments are mapped */\n  isProperlyPaired() {\n    return !!(this.flags & Constants.BAM_FPROPER_PAIR)\n  }\n\n  /** @returns {boolean} true if the read itself is unmapped; conflictive with isProperlyPaired */\n  isSegmentUnmapped() {\n    return !!(this.flags & Constants.BAM_FUNMAP)\n  }\n\n  /** @returns {boolean} true if the read itself is unmapped; conflictive with isProperlyPaired */\n  isMateUnmapped() {\n    return !!(this.flags & Constants.BAM_FMUNMAP)\n  }\n\n  /** @returns {boolean} true if the read is mapped to the reverse strand */\n  isReverseComplemented() {\n    return !!(this.flags & Constants.BAM_FREVERSE)\n  }\n\n  /** @returns {boolean} true if the mate is mapped to the reverse strand */\n  isMateReverseComplemented() {\n    return !!(this.flags & Constants.BAM_FMREVERSE)\n  }\n\n  /** @returns {boolean} true if this is read number 1 in a pair */\n  isRead1() {\n    return !!(this.flags & Constants.BAM_FREAD1)\n  }\n\n  /** @returns {boolean} true if this is read number 2 in a pair */\n  isRead2() {\n    return !!(this.flags & Constants.BAM_FREAD2)\n  }\n\n  /** @returns {boolean} true if this is a secondary alignment */\n  isSecondary() {\n    return !!(this.flags & Constants.BAM_FSECONDARY)\n  }\n\n  /** @returns {boolean} true if this read has failed QC checks */\n  isFailedQc() {\n    return !!(this.flags & Constants.BAM_FQCFAIL)\n  }\n\n  /** @returns {boolean} true if the read is an optical or PCR duplicate */\n  isDuplicate() {\n    return !!(this.flags & Constants.BAM_FDUP)\n  }\n\n  /** @returns {boolean} true if this is a supplementary alignment */\n  isSupplementary() {\n    return !!(this.flags & Constants.BAM_FSUPPLEMENTARY)\n  }\n\n  cigar() {\n    if (this.isSegmentUnmapped()) {\n      return undefined\n    }\n\n    const { byteArray, start } = this.bytes\n    const numCigarOps = this.get('_n_cigar_op')\n    let p = start + 36 + this.get('_l_read_name')\n    const seqLen = this.get('seq_length')\n    let cigar = ''\n    let lref = 0\n\n    // check for CG tag by inspecting whether the CIGAR field\n    // contains a clip that consumes entire seqLen\n    let cigop = byteArray.readInt32LE(p)\n    let lop = cigop >> 4\n    let op = CIGAR_DECODER[cigop & 0xf]\n    if (op === 'S' && lop === seqLen) {\n      // if there is a CG the second CIGAR field will\n      // be a N tag the represents the length on ref\n      p += 4\n      cigop = byteArray.readInt32LE(p)\n      lop = cigop >> 4\n      op = CIGAR_DECODER[cigop & 0xf]\n      if (op !== 'N') {\n        console.warn('CG tag with no N tag')\n      }\n      this.data.length_on_ref = lop\n      return this.get('CG')\n    } else {\n      for (let c = 0; c < numCigarOps; ++c) {\n        cigop = byteArray.readInt32LE(p)\n        lop = cigop >> 4\n        op = CIGAR_DECODER[cigop & 0xf]\n        cigar += lop + op\n\n        // soft clip, hard clip, and insertion don't count toward\n        // the length on the reference\n        if (op !== 'H' && op !== 'S' && op !== 'I') {\n          lref += lop\n        }\n\n        p += 4\n      }\n\n      this.data.length_on_ref = lref\n      return cigar\n    }\n  }\n\n  _flags() {}\n\n  length_on_ref() {\n    this.get('cigar') // the length_on_ref is set as a\n    // side effect of the CIGAR parsing\n    return this.data.length_on_ref\n  }\n\n  _n_cigar_op() {\n    return this.get('_flag_nc') & 0xffff\n  }\n\n  _l_read_name() {\n    return this.get('_bin_mq_nl') & 0xff\n  }\n\n  /**\n   * number of bytes in the sequence field\n   */\n  _seq_bytes() {\n    return (this.get('seq_length') + 1) >> 1\n  }\n\n  getReadBases() {\n    return this.seq()\n  }\n\n  seq() {\n    const { byteArray } = this.bytes\n    const p = this.bytes.start + 36 + this.get('_l_read_name') + this.get('_n_cigar_op') * 4\n    const seqBytes = this.get('_seq_bytes')\n    const len = this.get('seq_length')\n    let buf = ''\n    let i = 0\n    for (let j = 0; j < seqBytes; ++j) {\n      const sb = byteArray[p + j]\n      buf += String.fromCharCode(SEQRET_DECODER[(sb & 0xf0) >> 4])\n      i++\n      if (i < len) {\n        buf += String.fromCharCode(SEQRET_DECODER[sb & 0x0f])\n        i++\n      }\n    }\n    return buf\n  }\n\n  // adapted from igv.js\n  getPairOrientation() {\n    if (!this.isSegmentUnmapped() && !this.isMateUnmapped() && this._refID === this._next_refid()) {\n      const s1 = this.isReverseComplemented() ? 'R' : 'F'\n      const s2 = this.isMateReverseComplemented() ? 'R' : 'F'\n      let o1 = ' '\n      let o2 = ' '\n      if (this.isRead1()) {\n        o1 = '1'\n        o2 = '2'\n      } else if (this.isRead2()) {\n        o1 = '2'\n        o2 = '1'\n      }\n\n      const tmp = []\n      const isize = this.template_length()\n      if (isize > 0) {\n        tmp[0] = s1\n        tmp[1] = o1\n        tmp[2] = s2\n        tmp[3] = o2\n      } else {\n        tmp[2] = s1\n        tmp[3] = o1\n        tmp[0] = s2\n        tmp[1] = o2\n      }\n      return tmp.join('')\n    }\n    return null\n  }\n\n  _bin_mq_nl() {\n    return this.bytes.byteArray.readInt32LE(this.bytes.start + 12)\n  }\n\n  _flag_nc() {\n    return this.bytes.byteArray.readInt32LE(this.bytes.start + 16)\n  }\n\n  seq_length() {\n    return this.bytes.byteArray.readInt32LE(this.bytes.start + 20)\n  }\n\n  _next_refid() {\n    return this.bytes.byteArray.readInt32LE(this.bytes.start + 24)\n  }\n\n  _next_pos() {\n    return this.bytes.byteArray.readInt32LE(this.bytes.start + 28)\n  }\n\n  template_length() {\n    return this.bytes.byteArray.readInt32LE(this.bytes.start + 32)\n  }\n\n  toJSON() {\n    const data: { [key: string]: any } = {}\n    Object.keys(this).forEach(k => {\n      if (k.charAt(0) === '_' || k === 'bytes') {\n        return\n      }\n      //@ts-ignore\n      data[k] = this[k]\n    })\n\n    return data\n  }\n}\n"]} | ||
//# sourceMappingURL=record.js.map |
"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.parseHeaderText = parseHeaderText; | ||
var _slicedToArray2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/slicedToArray")); | ||
var _map = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/map")); | ||
var _slice = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/slice")); | ||
var _toArray2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/toArray")); | ||
var _forEach = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/for-each")); | ||
Object.defineProperty(exports, "__esModule", { value: true }); | ||
exports.parseHeaderText = void 0; | ||
function parseHeaderText(text) { | ||
var lines = text.split(/\r?\n/); | ||
var data = []; | ||
(0, _forEach.default)(lines).call(lines, function (line) { | ||
var _line$split = line.split(/\t/), | ||
_line$split2 = (0, _toArray2.default)(_line$split), | ||
tag = _line$split2[0], | ||
fields = (0, _slice.default)(_line$split2).call(_line$split2, 1); | ||
var parsedFields = (0, _map.default)(fields).call(fields, function (f) { | ||
var _f$split = f.split(':', 2), | ||
_f$split2 = (0, _slicedToArray2.default)(_f$split, 2), | ||
fieldTag = _f$split2[0], | ||
value = _f$split2[1]; | ||
return { | ||
tag: fieldTag, | ||
value: value | ||
}; | ||
var lines = text.split(/\r?\n/); | ||
var data = []; | ||
lines.forEach(function (line) { | ||
var _a = line.split(/\t/), tag = _a[0], fields = _a.slice(1); | ||
var parsedFields = fields.map(function (f) { | ||
var _a = f.split(':', 2), fieldTag = _a[0], value = _a[1]; | ||
return { tag: fieldTag, value: value }; | ||
}); | ||
if (tag) { | ||
data.push({ tag: tag.substr(1), data: parsedFields }); | ||
} | ||
}); | ||
if (tag) { | ||
data.push({ | ||
tag: tag.substr(1), | ||
data: parsedFields | ||
}); | ||
} | ||
}); | ||
return data; | ||
return data; | ||
} | ||
//# sourceMappingURL=data:application/json;charset=utf-8;base64,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 | ||
exports.parseHeaderText = parseHeaderText; | ||
//# sourceMappingURL=sam.js.map |
@@ -1,2 +0,1 @@ | ||
/// <reference types="long" /> | ||
import Chunk from './chunk'; | ||
@@ -3,0 +2,0 @@ import VirtualOffset from './virtualOffset'; |
241
dist/util.js
"use strict"; | ||
var _interopRequireDefault = require("@babel/runtime-corejs3/helpers/interopRequireDefault"); | ||
var _Object$defineProperty = require("@babel/runtime-corejs3/core-js-stable/object/define-property"); | ||
_Object$defineProperty(exports, "__esModule", { | ||
value: true | ||
}); | ||
exports.timeout = timeout; | ||
exports.longToNumber = longToNumber; | ||
exports.checkAbortSignal = checkAbortSignal; | ||
exports.abortBreakPoint = abortBreakPoint; | ||
exports.canMergeBlocks = canMergeBlocks; | ||
exports.makeOpts = makeOpts; | ||
exports.optimizeChunks = optimizeChunks; | ||
var _regenerator = _interopRequireDefault(require("@babel/runtime-corejs3/regenerator")); | ||
var _forEach = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/for-each")); | ||
var _sort = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/instance/sort")); | ||
var _asyncToGenerator2 = _interopRequireDefault(require("@babel/runtime-corejs3/helpers/asyncToGenerator")); | ||
var _minSafeInteger = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/number/min-safe-integer")); | ||
var _maxSafeInteger = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/number/max-safe-integer")); | ||
var _setTimeout2 = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/set-timeout")); | ||
var _promise = _interopRequireDefault(require("@babel/runtime-corejs3/core-js-stable/promise")); | ||
var __awaiter = (this && this.__awaiter) || function (thisArg, _arguments, P, generator) { | ||
function adopt(value) { return value instanceof P ? value : new P(function (resolve) { resolve(value); }); } | ||
return new (P || (P = Promise))(function (resolve, reject) { | ||
function fulfilled(value) { try { step(generator.next(value)); } catch (e) { reject(e); } } | ||
function rejected(value) { try { step(generator["throw"](value)); } catch (e) { reject(e); } } | ||
function step(result) { result.done ? resolve(result.value) : adopt(result.value).then(fulfilled, rejected); } | ||
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 }); | ||
exports.optimizeChunks = exports.makeOpts = exports.canMergeBlocks = exports.abortBreakPoint = exports.checkAbortSignal = exports.longToNumber = exports.timeout = void 0; | ||
function timeout(ms) { | ||
return new _promise.default(function (resolve) { | ||
return (0, _setTimeout2.default)(resolve, ms); | ||
}); | ||
return new Promise(function (resolve) { return setTimeout(resolve, ms); }); | ||
} | ||
exports.timeout = timeout; | ||
function longToNumber(long) { | ||
if (long.greaterThan(_maxSafeInteger.default) || long.lessThan(_minSafeInteger.default)) { | ||
throw new Error('integer overflow'); | ||
} | ||
return long.toNumber(); | ||
if (long.greaterThan(Number.MAX_SAFE_INTEGER) || | ||
long.lessThan(Number.MIN_SAFE_INTEGER)) { | ||
throw new Error('integer overflow'); | ||
} | ||
return long.toNumber(); | ||
} | ||
exports.longToNumber = longToNumber; | ||
/** | ||
@@ -59,21 +63,20 @@ * Properly check if the given AbortSignal is aborted. | ||
*/ | ||
function checkAbortSignal(signal) { | ||
if (!signal) { | ||
return; | ||
} | ||
if (signal.aborted) { | ||
// console.log('bam aborted!') | ||
if (typeof DOMException !== 'undefined') { | ||
throw new DOMException('aborted', 'AbortError'); | ||
} else { | ||
var e = new Error('aborted'); //@ts-ignore | ||
e.code = 'ERR_ABORTED'; | ||
throw e; | ||
if (!signal) { | ||
return; | ||
} | ||
} | ||
if (signal.aborted) { | ||
// console.log('bam aborted!') | ||
if (typeof DOMException !== 'undefined') { | ||
throw new DOMException('aborted', 'AbortError'); | ||
} | ||
else { | ||
var e = new Error('aborted'); | ||
//@ts-ignore | ||
e.code = 'ERR_ABORTED'; | ||
throw e; | ||
} | ||
} | ||
} | ||
exports.checkAbortSignal = checkAbortSignal; | ||
/** | ||
@@ -85,77 +88,63 @@ * Skips to the next tick, then runs `checkAbortSignal`. | ||
*/ | ||
function abortBreakPoint(_x) { | ||
return _abortBreakPoint.apply(this, arguments); | ||
function abortBreakPoint(signal) { | ||
return __awaiter(this, void 0, void 0, function () { | ||
return __generator(this, function (_a) { | ||
switch (_a.label) { | ||
case 0: return [4 /*yield*/, Promise.resolve()]; | ||
case 1: | ||
_a.sent(); | ||
checkAbortSignal(signal); | ||
return [2 /*return*/]; | ||
} | ||
}); | ||
}); | ||
} | ||
function _abortBreakPoint() { | ||
_abortBreakPoint = (0, _asyncToGenerator2.default)( /*#__PURE__*/_regenerator.default.mark(function _callee(signal) { | ||
return _regenerator.default.wrap(function _callee$(_context) { | ||
while (1) { | ||
switch (_context.prev = _context.next) { | ||
case 0: | ||
_context.next = 2; | ||
return _promise.default.resolve(); | ||
case 2: | ||
checkAbortSignal(signal); | ||
case 3: | ||
case "end": | ||
return _context.stop(); | ||
} | ||
} | ||
}, _callee); | ||
})); | ||
return _abortBreakPoint.apply(this, arguments); | ||
} | ||
exports.abortBreakPoint = abortBreakPoint; | ||
function canMergeBlocks(chunk1, chunk2) { | ||
return chunk2.minv.blockPosition - chunk1.maxv.blockPosition < 65000 && chunk2.maxv.blockPosition - chunk1.minv.blockPosition < 5000000; | ||
return (chunk2.minv.blockPosition - chunk1.maxv.blockPosition < 65000 && | ||
chunk2.maxv.blockPosition - chunk1.minv.blockPosition < 5000000); | ||
} | ||
function makeOpts() { | ||
var obj = arguments.length > 0 && arguments[0] !== undefined ? arguments[0] : {}; | ||
return 'aborted' in obj ? { | ||
signal: obj | ||
} : obj; | ||
exports.canMergeBlocks = canMergeBlocks; | ||
function makeOpts(obj) { | ||
if (obj === void 0) { obj = {}; } | ||
return 'aborted' in obj ? { signal: obj } : obj; | ||
} | ||
exports.makeOpts = makeOpts; | ||
function optimizeChunks(chunks, lowest) { | ||
var mergedChunks = []; | ||
var lastChunk = null; | ||
if (chunks.length === 0) { | ||
return chunks; | ||
} | ||
(0, _sort.default)(chunks).call(chunks, function (c0, c1) { | ||
var dif = c0.minv.blockPosition - c1.minv.blockPosition; | ||
if (dif !== 0) { | ||
return dif; | ||
} else { | ||
return c0.minv.dataPosition - c1.minv.dataPosition; | ||
var mergedChunks = []; | ||
var lastChunk = null; | ||
if (chunks.length === 0) { | ||
return chunks; | ||
} | ||
}); | ||
(0, _forEach.default)(chunks).call(chunks, function (chunk) { | ||
if (!lowest || chunk.maxv.compareTo(lowest) > 0) { | ||
if (lastChunk === null) { | ||
mergedChunks.push(chunk); | ||
lastChunk = chunk; | ||
} else { | ||
if (canMergeBlocks(lastChunk, chunk)) { | ||
if (chunk.maxv.compareTo(lastChunk.maxv) > 0) { | ||
lastChunk.maxv = chunk.maxv; | ||
} | ||
} else { | ||
mergedChunks.push(chunk); | ||
lastChunk = chunk; | ||
chunks.sort(function (c0, c1) { | ||
var dif = c0.minv.blockPosition - c1.minv.blockPosition; | ||
if (dif !== 0) { | ||
return dif; | ||
} | ||
} | ||
} | ||
}); | ||
return mergedChunks; | ||
else { | ||
return c0.minv.dataPosition - c1.minv.dataPosition; | ||
} | ||
}); | ||
chunks.forEach(function (chunk) { | ||
if (!lowest || chunk.maxv.compareTo(lowest) > 0) { | ||
if (lastChunk === null) { | ||
mergedChunks.push(chunk); | ||
lastChunk = chunk; | ||
} | ||
else { | ||
if (canMergeBlocks(lastChunk, chunk)) { | ||
if (chunk.maxv.compareTo(lastChunk.maxv) > 0) { | ||
lastChunk.maxv = chunk.maxv; | ||
} | ||
} | ||
else { | ||
mergedChunks.push(chunk); | ||
lastChunk = chunk; | ||
} | ||
} | ||
} | ||
}); | ||
return mergedChunks; | ||
} | ||
//# sourceMappingURL=data:application/json;charset=utf-8;base64,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 | ||
exports.optimizeChunks = optimizeChunks; | ||
//# sourceMappingURL=util.js.map |
"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.fromBytes = fromBytes; | ||
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")); | ||
var VirtualOffset = /*#__PURE__*/function () { | ||
function VirtualOffset(blockPosition, dataPosition) { | ||
(0, _classCallCheck2.default)(this, VirtualOffset); | ||
(0, _defineProperty2.default)(this, "blockPosition", void 0); | ||
(0, _defineProperty2.default)(this, "dataPosition", void 0); | ||
this.blockPosition = blockPosition; // < offset of the compressed data block | ||
this.dataPosition = dataPosition; // < offset into the uncompressed data | ||
} | ||
(0, _createClass2.default)(VirtualOffset, [{ | ||
key: "toString", | ||
value: function toString() { | ||
var _context; | ||
return (0, _concat.default)(_context = "".concat(this.blockPosition, ":")).call(_context, this.dataPosition); | ||
Object.defineProperty(exports, "__esModule", { value: true }); | ||
exports.fromBytes = void 0; | ||
var VirtualOffset = /** @class */ (function () { | ||
function VirtualOffset(blockPosition, dataPosition) { | ||
this.blockPosition = blockPosition; // < offset of the compressed data block | ||
this.dataPosition = dataPosition; // < offset into the uncompressed data | ||
} | ||
}, { | ||
key: "compareTo", | ||
value: function compareTo(b) { | ||
return this.blockPosition - b.blockPosition || this.dataPosition - b.dataPosition; | ||
} | ||
}], [{ | ||
key: "min", | ||
value: function min() { | ||
var min; | ||
var i = 0; | ||
for (var _len = arguments.length, args = new Array(_len), _key = 0; _key < _len; _key++) { | ||
args[_key] = arguments[_key]; | ||
} | ||
for (; !min; i += 1) { | ||
min = args[i]; | ||
} | ||
for (; i < args.length; i += 1) { | ||
if (min.compareTo(args[i]) > 0) { | ||
min = args[i]; | ||
VirtualOffset.prototype.toString = function () { | ||
return "".concat(this.blockPosition, ":").concat(this.dataPosition); | ||
}; | ||
VirtualOffset.prototype.compareTo = function (b) { | ||
return (this.blockPosition - b.blockPosition || this.dataPosition - b.dataPosition); | ||
}; | ||
VirtualOffset.min = function () { | ||
var args = []; | ||
for (var _i = 0; _i < arguments.length; _i++) { | ||
args[_i] = arguments[_i]; | ||
} | ||
} | ||
return min; | ||
var min; | ||
var i = 0; | ||
for (; !min; i += 1) { | ||
min = args[i]; | ||
} | ||
for (; i < args.length; i += 1) { | ||
if (min.compareTo(args[i]) > 0) { | ||
min = args[i]; | ||
} | ||
} | ||
return min; | ||
}; | ||
return VirtualOffset; | ||
}()); | ||
exports.default = VirtualOffset; | ||
function fromBytes(bytes, offset, bigendian) { | ||
if (offset === void 0) { offset = 0; } | ||
if (bigendian === void 0) { bigendian = false; } | ||
if (bigendian) { | ||
throw new Error('big-endian virtual file offsets not implemented'); | ||
} | ||
}]); | ||
return VirtualOffset; | ||
}(); | ||
exports.default = VirtualOffset; | ||
function fromBytes(bytes) { | ||
var offset = arguments.length > 1 && arguments[1] !== undefined ? arguments[1] : 0; | ||
var bigendian = arguments.length > 2 && arguments[2] !== undefined ? arguments[2] : false; | ||
if (bigendian) { | ||
throw new Error('big-endian virtual file offsets not implemented'); | ||
} | ||
return new VirtualOffset(bytes[offset + 7] * 0x10000000000 + bytes[offset + 6] * 0x100000000 + bytes[offset + 5] * 0x1000000 + bytes[offset + 4] * 0x10000 + bytes[offset + 3] * 0x100 + bytes[offset + 2], bytes[offset + 1] << 8 | bytes[offset]); | ||
return new VirtualOffset(bytes[offset + 7] * 0x10000000000 + | ||
bytes[offset + 6] * 0x100000000 + | ||
bytes[offset + 5] * 0x1000000 + | ||
bytes[offset + 4] * 0x10000 + | ||
bytes[offset + 3] * 0x100 + | ||
bytes[offset + 2], (bytes[offset + 1] << 8) | bytes[offset]); | ||
} | ||
//# sourceMappingURL=data:application/json;charset=utf-8;base64,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 | ||
exports.fromBytes = fromBytes; | ||
//# sourceMappingURL=virtualOffset.js.map |
{ | ||
"name": "@gmod/bam", | ||
"version": "1.1.8", | ||
"version": "1.1.9", | ||
"description": "Parser for BAM and BAM index (bai) files", | ||
@@ -8,2 +8,3 @@ "license": "MIT", | ||
"main": "dist/index.js", | ||
"module": "esm/index.js", | ||
"author": { | ||
@@ -18,3 +19,4 @@ "name": "Colin Diesh", | ||
"files": [ | ||
"dist" | ||
"dist", | ||
"esm" | ||
], | ||
@@ -25,7 +27,7 @@ "scripts": { | ||
"lint": "eslint --report-unused-disable-directives --max-warnings 0 --ext .js,.ts src test", | ||
"clean": "rimraf dist", | ||
"clean": "rimraf dist esm", | ||
"build:esm": "tsc --target es2018 --outDir esm", | ||
"build:es5": "tsc --target es5 --outDir dist", | ||
"build": "npm run build:esm && npm run build:es5", | ||
"prebuild": "npm run clean && npm run lint", | ||
"build:types": "tsc --emitDeclarationOnly", | ||
"build:js": "babel src --out-dir dist --extensions \".ts,.tsx\" --source-maps inline", | ||
"build": "npm run build:types && npm run build:js", | ||
"preversion": "npm run lint && npm test && npm run build", | ||
@@ -35,5 +37,2 @@ "version": "standard-changelog && git add CHANGELOG.md", | ||
}, | ||
"jest": { | ||
"testEnvironment": "node" | ||
}, | ||
"keywords": [ | ||
@@ -46,3 +45,2 @@ "bionode", | ||
"dependencies": { | ||
"@babel/runtime-corejs3": "^7.5.5", | ||
"@gmod/bgzf-filehandle": "^1.3.3", | ||
@@ -60,26 +58,20 @@ "abortable-promise-cache": "^1.4.0", | ||
"devDependencies": { | ||
"@babel/cli": "^7.2.3", | ||
"@babel/core": "^7.3.3", | ||
"@babel/plugin-proposal-class-properties": "^7.5.5", | ||
"@babel/plugin-transform-runtime": "^7.2.0", | ||
"@babel/preset-env": "^7.3.1", | ||
"@babel/preset-typescript": "^7.6.0", | ||
"@types/buffer-crc32": "^0.2.0", | ||
"@types/jest": "^27.0.2", | ||
"@types/long": "^4.0.0", | ||
"@types/node": "^12.7.8", | ||
"@types/range-parser": "^1.2.3", | ||
"@typescript-eslint/eslint-plugin": "^2.3.1", | ||
"@typescript-eslint/parser": "^2.3.1", | ||
"babel-jest": "^24.1.0", | ||
"eslint": "^5.12.0", | ||
"eslint-config-airbnb-base": "^13.1.0", | ||
"eslint-config-prettier": "^4.1.0", | ||
"eslint-plugin-import": "^2.10.0", | ||
"eslint-plugin-jest": "^22.17.0", | ||
"eslint-plugin-prettier": "^3.0.1", | ||
"jest": "^24.3.1", | ||
"prettier": "^1.11.1", | ||
"rimraf": "^2.6.2", | ||
"@typescript-eslint/eslint-plugin": "^5.7.0", | ||
"@typescript-eslint/parser": "^5.7.0", | ||
"eslint": "^7.0.0", | ||
"eslint-config-airbnb-base": "^15.0.0", | ||
"eslint-config-prettier": "^8.3.0", | ||
"eslint-plugin-import": "^2.25.3", | ||
"eslint-plugin-prettier": "^4.0.0", | ||
"jest": "^27.3.1", | ||
"prettier": "^2.4.1", | ||
"rimraf": "^3.0.2", | ||
"standard-changelog": "^1.0.0", | ||
"typescript": "^3.6.3" | ||
"ts-jest": "^27.0.7", | ||
"typescript": "^4.4.4" | ||
}, | ||
@@ -86,0 +78,0 @@ "publishConfig": { |
@@ -1,5 +0,4 @@ | ||
[![Generated with nod](https://img.shields.io/badge/generator-nod-2196F3.svg?style=flat-square)](https://github.com/diegohaz/nod) | ||
[![NPM version](https://img.shields.io/npm/v/@gmod/bam.svg?style=flat-square)](https://npmjs.org/package/@gmod/bam) | ||
[![Build Status](https://img.shields.io/travis/GMOD/bam-js/master.svg?style=flat-square)](https://travis-ci.org/GMOD/bam-js) | ||
[![Coverage Status](https://img.shields.io/codecov/c/github/GMOD/bam-js/master.svg?style=flat-square)](https://codecov.io/gh/GMOD/bam-js/branch/master) | ||
[![Build Status](https://img.shields.io/github/workflow/status/GMOD/bam-js/Push/master?logo=github&style=flat-query)](https://github.com/GMOD/bam-js/actions?query=branch%3Amaster+workflow%3APush+) | ||
@@ -50,3 +49,3 @@ ## Install | ||
- bamPath/baiUrl/bamFilehandle - a string file path to a local file or a class object with a read method | ||
- bamPath/bamUrl/bamFilehandle - a string file path to a local file or a class object with a read method | ||
- csiPath/csiUrl/csiFilehandle - a CSI index for the BAM file, required for long chromosomes greater than 2^29 in length | ||
@@ -53,0 +52,0 @@ - baiPath/baiUrl/baiFilehandle - a BAI index for the BAM file |
Sorry, the diff of this file is too big to display
License Policy Violation
LicenseThis package is not allowed per your license policy. Review the package's license to ensure compliance.
Found 1 instance in 1 package
Major refactor
Supply chain riskPackage has recently undergone a major refactor. It may be unstable or indicate significant internal changes. Use caution when updating to versions that include significant changes.
Found 1 instance in 1 package
License Policy Violation
LicenseThis package is not allowed per your license policy. Review the package's license to ensure compliance.
Found 1 instance in 1 package
351714
10
18
82
5098
149
7
- Removed@babel/runtime-corejs3@^7.5.5
- Removed@babel/runtime-corejs3@7.26.0(transitive)
- Removedcore-js-pure@3.39.0(transitive)
- Removedregenerator-runtime@0.14.1(transitive)