@gmod/cram
Version:
read CRAM files with pure Javascript
36 lines • 1.44 kB
JavaScript
;
var __importDefault = (this && this.__importDefault) || function (mod) {
return (mod && mod.__esModule) ? mod : { "default": mod };
};
Object.defineProperty(exports, "__esModule", { value: true });
const _base_ts_1 = __importDefault(require("./_base.js"));
const getBits_ts_1 = require("./getBits.js");
const errors_ts_1 = require("../../errors.js");
class SubexpCodec extends _base_ts_1.default {
constructor(parameters, dataType) {
super(parameters, dataType);
if (this.dataType !== 'int') {
throw new errors_ts_1.CramUnimplementedError(`${this.dataType} decoding not yet implemented by SUBEXP codec`);
}
}
decode(_slice, coreDataBlock, _blocksByContentId, cursors) {
let numLeadingOnes = 0;
while ((0, getBits_ts_1.getBits)(coreDataBlock.content, cursors.coreBlock, 1)) {
numLeadingOnes = numLeadingOnes + 1;
}
let b;
let n;
if (numLeadingOnes === 0) {
b = this.parameters.K;
n = (0, getBits_ts_1.getBits)(coreDataBlock.content, cursors.coreBlock, b);
}
else {
b = numLeadingOnes + this.parameters.K - 1;
const bits = (0, getBits_ts_1.getBits)(coreDataBlock.content, cursors.coreBlock, b);
n = (1 << b) | bits;
}
return n - this.parameters.offset;
}
}
exports.default = SubexpCodec;
//# sourceMappingURL=subexp.js.map