@gmod/bbi 4.0.5 → 5.0.0

package/dist/bigbed.js

@@ -23,18 +23,18 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.BigBed = exports.filterUndef = void 0;
+exports.BigBed = void 0;
+exports.filterUndef = filterUndef;
 const buffer_1 = require("buffer");
-const binary_parser_1 = require("binary-parser");
 const rxjs_1 = require("rxjs");
 const operators_1 = require("rxjs/operators");
-const abortable_promise_cache_1 = __importDefault(require("abortable-promise-cache"));
+const abortable_promise_cache_1 = __importDefault(require("@gmod/abortable-promise-cache"));
 const quick_lru_1 = __importDefault(require("quick-lru"));
+// locals
 const bbi_1 = require("./bbi");
 function filterUndef(ts) {
     return ts.filter((t) => !!t);
 }
-exports.filterUndef = filterUndef;
 class BigBed extends bbi_1.BBI {
     constructor() {
         super(...arguments);
@@ -57,45 +57,52 @@ class BigBed extends bbi_1.BBI {
     }
     /*
      * parse the bigbed extraIndex fields
-     * @param abortSignal to abort operation
-     * @return a Promise for an array of Index data structure since there can be multiple extraIndexes in a bigbed, see bedToBigBed documentation
+     *
+     *
+     * @return a Promise for an array of Index data structure since there can be
+     * multiple extraIndexes in a bigbed, see bedToBigBed documentation
      */
     _readIndices(opts) {
         return __awaiter(this, void 0, void 0, function* () {
             const { extHeaderOffset, isBigEndian } = yield this.getHeader(opts);
             const { buffer: data } = yield this.bbi.read(buffer_1.Buffer.alloc(64), 0, 64, Number(extHeaderOffset));
-            const le = isBigEndian ? 'big' : 'little';
-            const ret = new binary_parser_1.Parser()
-                .endianess(le)
-                .uint16('size')
-                .uint16('count')
-                .uint64('offset')
-                .parse(data);
-            const { count, offset } = ret;
+            const le = !isBigEndian;
+            const b = data;
+            const dataView = new DataView(b.buffer, b.byteOffset, b.length);
+            let offset = 0;
+            // const _size = dataView.getUint16(offset, le)
+            offset += 2;
+            const count = dataView.getUint16(offset, le);
+            offset += 2;
+            const dataOffset = Number(dataView.getBigUint64(offset, le));
+            offset += 8;
             // no extra index is defined if count==0
             if (count === 0) {
                 return [];
             }
             const blocklen = 20;
             const len = blocklen * count;
-            const { buffer } = yield this.bbi.read(buffer_1.Buffer.alloc(len), 0, len, Number(offset));
-            const extParser = new binary_parser_1.Parser()
-                .endianess(le)
-                .int16('type')
-                .int16('fieldcount')
-                .uint64('offset')
-                .skip(4)
-                .int16('field');
+            const { buffer } = yield this.bbi.read(buffer_1.Buffer.alloc(len), 0, len, Number(dataOffset));
             const indices = [];
             for (let i = 0; i < count; i += 1) {
-                indices.push(extParser.parse(buffer.subarray(i * blocklen)));
+                const b = buffer.subarray(i * blocklen);
+                const dataView = new DataView(b.buffer, b.byteOffset, b.length);
+                let offset = 0;
+                const type = dataView.getInt16(offset, le);
+                offset += 2;
+                const fieldcount = dataView.getInt16(offset, le);
+                offset += 2;
+                const dataOffset = Number(dataView.getBigUint64(offset, le));
+                offset += 8 + 4; //4 skip
+                const field = dataView.getInt16(offset, le);
+                indices.push({ type, fieldcount, offset: Number(dataOffset), field });
             }
             return indices;
         });
     }
     /*
-     * perform a search in the bigbed extraIndex to find which blocks in the bigbed data to look for the
-     * actual feature data
+     * perform a search in the bigbed extraIndex to find which blocks in the
+     * bigbed data to look for the actual feature data
      *
      * @param name - the name to search for
      * @param opts - a SearchOptions argument with optional signal
@@ -109,52 +116,48 @@ class BigBed extends bbi_1.BBI {
                 return [];
             }
             const locs = indices.map((index) => __awaiter(this, void 0, void 0, function* () {
-                const { offset, field } = index;
-                const { buffer: data } = yield this.bbi.read(buffer_1.Buffer.alloc(32), 0, 32, Number(offset), opts);
-                const le = isBigEndian ? 'big' : 'little';
-                const p = new binary_parser_1.Parser()
-                    .endianess(le)
-                    .int32('magic')
-                    .int32('blockSize')
-                    .int32('keySize')
-                    .int32('valSize')
-                    .uint64('itemCount');
-                const { blockSize, keySize, valSize } = p.parse(data);
-                // console.log({blockSize,keySize,valSize})
-                const bpt = new binary_parser_1.Parser()
-                    .endianess(le)
-                    .int8('nodeType')
-                    .skip(1)
-                    .int16('cnt')
-                    .choice({
-                    tag: 'nodeType',
-                    choices: {
-                        0: new binary_parser_1.Parser().array('leafkeys', {
-                            length: 'cnt',
-                            type: new binary_parser_1.Parser()
-                                .endianess(le)
-                                .string('key', { length: keySize, stripNull: true })
-                                .uint64('offset'),
-                        }),
-                        1: new binary_parser_1.Parser().array('keys', {
-                            length: 'cnt',
-                            type: new binary_parser_1.Parser()
-                                .endianess(le)
-                                .string('key', { length: keySize, stripNull: true })
-                                .uint64('offset')
-                                .uint32('length')
-                                .uint32('reserved'),
-                        }),
-                    },
-                });
+                const { offset: offset2, field } = index;
+                const { buffer: data } = yield this.bbi.read(buffer_1.Buffer.alloc(32), 0, 32, offset2, opts);
+                const le = !isBigEndian;
+                const b = data;
+                const dataView = new DataView(b.buffer, b.byteOffset, b.length);
+                let offset = 0;
+                // const _magic = dataView.getInt32(offset, le)
+                offset += 4;
+                const blockSize = dataView.getInt32(offset, le);
+                offset += 4;
+                const keySize = dataView.getInt32(offset, le);
+                offset += 4;
+                const valSize = dataView.getInt32(offset, le);
+                offset += 4;
+                // const _itemCount = Number(dataView.getBigUint64(offset, le))
+                offset += 8;
                 const bptReadNode = (nodeOffset) => __awaiter(this, void 0, void 0, function* () {
                     const val = Number(nodeOffset);
                     const len = 4 + blockSize * (keySize + valSize);
                     const { buffer } = yield this.bbi.read(buffer_1.Buffer.alloc(len), 0, len, val, opts);
-                    const node = bpt.parse(buffer);
-                    if (node.leafkeys) {
-                        let lastOffset;
-                        for (const { key, offset } of node.leafkeys) {
+                    const b = buffer;
+                    const dataView = new DataView(b.buffer, b.byteOffset, b.length);
+                    let offset = 0;
+                    const nodeType = dataView.getInt8(offset);
+                    offset += 2; //skip 1
+                    const cnt = dataView.getInt16(offset, le);
+                    offset += 2;
+                    const keys = [];
+                    if (nodeType === 0) {
+                        const leafkeys = [];
+                        for (let i = 0; i < cnt; i++) {
+                            const key = b
+                                .subarray(offset, offset + keySize)
+                                .toString()
+                                .replaceAll('\0', '');
+                            offset += keySize;
+                            const dataOffset = Number(dataView.getBigUint64(offset, le));
+                            offset += 8;
+                            leafkeys.push({ key, offset: dataOffset });
+                        }
+                        let lastOffset = 0;
+                        for (const { key, offset } of leafkeys) {
                             if (name.localeCompare(key) < 0 && lastOffset) {
                                 return bptReadNode(lastOffset);
                             }
@@ -162,15 +165,31 @@ class BigBed extends bbi_1.BBI {
                         }
                         return bptReadNode(lastOffset);
                     }
-                    for (const n of node.keys) {
-                        if (n.key === name) {
-                            return Object.assign(Object.assign({}, n), { field });
+                    else if (nodeType === 1) {
+                        for (let i = 0; i < cnt; i++) {
+                            const key = b
+                                .subarray(offset, offset + keySize)
+                                .toString()
+                                .replaceAll('\0', '');
+                            offset += keySize;
+                            const dataOffset = Number(dataView.getBigUint64(offset, le));
+                            offset += 8;
+                            const length = dataView.getUint32(offset, le);
+                            offset += 4;
+                            const reserved = dataView.getUint32(offset, le);
+                            offset += 4;
+                            keys.push({ key, offset: dataOffset, length, reserved });
+                        }
+                        for (const n of keys) {
+                            if (n.key === name) {
+                                return Object.assign(Object.assign({}, n), { field });
+                            }
                         }
+                        return undefined;
                     }
-                    return undefined;
                 });
                 const rootNodeOffset = 32;
-                return bptReadNode(Number(offset) + rootNodeOffset);
+                return bptReadNode(offset2 + rootNodeOffset);
             }));
             return filterUndef(yield Promise.all(locs));
         });

package/dist/bigbed.js.map

@@ -1 +1 @@
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package/dist/bigint-polyfill/polyfill.js

@@ -11,14 +11,4 @@ if (!('getBigUint64' in DataView)) {
         return (0, pure_1.getBigUint64)(this, byteOffset, littleEndian);
     };
 }
-if (!('setBigInt64' in DataView)) {
-    DataView.prototype.setBigInt64 = function (byteOffset, value, littleEndian) {
-        (0, pure_1.setBigInt64)(this, byteOffset, value, littleEndian);
-    };
-}
-if (!('setBigUint64' in DataView)) {
-    DataView.prototype.setBigUint64 = function (byteOffset, value, littleEndian) {
-        (0, pure_1.setBigUint64)(this, byteOffset, value, littleEndian);
-    };
-}
 //# sourceMappingURL=polyfill.js.map

package/dist/bigint-polyfill/polyfill.js.map

@@ -1 +1 @@
-{"version":3,"file":"polyfill.js","sourceRoot":"","sources":["../../src/bigint-polyfill/polyfill.ts"],"names":[],"mappings":";;AAAA,iCAA6E;AAE7E,IAAI,CAAC,CAAC,aAAa,IAAI,QAAQ,CAAC,EAAE,CAAC;IACjC,QAAQ,CAAC,SAAS,CAAC,WAAW,GAAG,UAAU,UAAU,EAAE,YAAY;QACjE,OAAO,IAAA,kBAAW,EAAC,IAAI,EAAE,UAAU,EAAE,YAAY,CAAC,CAAA;IACpD,CAAC,CAAA;AACH,CAAC;AAED,IAAI,CAAC,CAAC,cAAc,IAAI,QAAQ,CAAC,EAAE,CAAC;IAClC,QAAQ,CAAC,SAAS,CAAC,YAAY,GAAG,UAAU,UAAU,EAAE,YAAY;QAClE,OAAO,IAAA,mBAAY,EAAC,IAAI,EAAE,UAAU,EAAE,YAAY,CAAC,CAAA;IACrD,CAAC,CAAA;AACH,CAAC;AAED,IAAI,CAAC,CAAC,aAAa,IAAI,QAAQ,CAAC,EAAE,CAAC;IACjC,QAAQ,CAAC,SAAS,CAAC,WAAW,GAAG,UAAU,UAAU,EAAE,KAAK,EAAE,YAAY;QACxE,IAAA,kBAAW,EAAC,IAAI,EAAE,UAAU,EAAE,KAAK,EAAE,YAAY,CAAC,CAAA;IACpD,CAAC,CAAA;AACH,CAAC;AAED,IAAI,CAAC,CAAC,cAAc,IAAI,QAAQ,CAAC,EAAE,CAAC;IAClC,QAAQ,CAAC,SAAS,CAAC,YAAY,GAAG,UAAU,UAAU,EAAE,KAAK,EAAE,YAAY;QACzE,IAAA,mBAAY,EAAC,IAAI,EAAE,UAAU,EAAE,KAAK,EAAE,YAAY,CAAC,CAAA;IACrD,CAAC,CAAA;AACH,CAAC"}
+{"version":3,"file":"polyfill.js","sourceRoot":"","sources":["../../src/bigint-polyfill/polyfill.ts"],"names":[],"mappings":";;AAAA,iCAAkD;AAElD,IAAI,CAAC,CAAC,aAAa,IAAI,QAAQ,CAAC,EAAE,CAAC;IACjC,QAAQ,CAAC,SAAS,CAAC,WAAW,GAAG,UAAU,UAAU,EAAE,YAAY;QACjE,OAAO,IAAA,kBAAW,EAAC,IAAI,EAAE,UAAU,EAAE,YAAY,CAAC,CAAA;IACpD,CAAC,CAAA;AACH,CAAC;AAED,IAAI,CAAC,CAAC,cAAc,IAAI,QAAQ,CAAC,EAAE,CAAC;IAClC,QAAQ,CAAC,SAAS,CAAC,YAAY,GAAG,UAAU,UAAU,EAAE,YAAY;QAClE,OAAO,IAAA,mBAAY,EAAC,IAAI,EAAE,UAAU,EAAE,YAAY,CAAC,CAAA;IACrD,CAAC,CAAA;AACH,CAAC"}

package/dist/bigint-polyfill/pure.d.ts

@@ -1,4 +1,2 @@
 export declare function getBigInt64(dataView: DataView, byteOffset: number, littleEndian: boolean | undefined): bigint;
 export declare function getBigUint64(dataView: DataView, byteOffset: number, littleEndian: boolean | undefined): bigint;
-export declare function setBigInt64(dataView: DataView, byteOffset: number, value: bigint, littleEndian: boolean | undefined): void;
-export declare function setBigUint64(dataView: DataView, byteOffset: number, value: bigint, littleEndian: boolean | undefined): void;

package/dist/bigint-polyfill/pure.js

@@ -1,6 +1,7 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.setBigUint64 = exports.setBigInt64 = exports.getBigUint64 = exports.getBigInt64 = void 0;
+exports.getBigInt64 = getBigInt64;
+exports.getBigUint64 = getBigUint64;
 const BigInt32 = BigInt(32);
 function getBigInt64(dataView, byteOffset, littleEndian) {
     const littleEndianMask = Number(!!littleEndian);
@@ -11,7 +12,6 @@ function getBigInt64(dataView, byteOffset, littleEndian) {
         BigInt(dataView.getUint32(byteOffset, littleEndian) * littleEndianMask +
             dataView.getUint32(byteOffset + 4, littleEndian) * bigEndianMask));
 }
-exports.getBigInt64 = getBigInt64;
 function getBigUint64(dataView, byteOffset, littleEndian) {
     const a = dataView.getUint32(byteOffset, littleEndian);
     const b = dataView.getUint32(byteOffset + 4, littleEndian);
@@ -23,31 +23,4 @@ function getBigUint64(dataView, byteOffset, littleEndian) {
     return ((BigInt(a * bigEndianMask + b * littleEndianMask) << BigInt32) |
         BigInt(a * littleEndianMask + b * bigEndianMask));
 }
-exports.getBigUint64 = getBigUint64;
-function setBigInt64(dataView, byteOffset, value, littleEndian) {
-    const hi = Number(value >> BigInt32);
-    const lo = Number(value & BigInt(0xffffffff));
-    if (littleEndian) {
-        dataView.setInt32(byteOffset + 4, hi, littleEndian);
-        dataView.setUint32(byteOffset, lo, littleEndian);
-    }
-    else {
-        dataView.setInt32(byteOffset, hi, littleEndian);
-        dataView.setUint32(byteOffset + 4, lo, littleEndian);
-    }
-}
-exports.setBigInt64 = setBigInt64;
-function setBigUint64(dataView, byteOffset, value, littleEndian) {
-    const hi = Number(value >> BigInt32);
-    const lo = Number(value & BigInt(0xffffffff));
-    if (littleEndian) {
-        dataView.setUint32(byteOffset + 4, hi, littleEndian);
-        dataView.setUint32(byteOffset, lo, littleEndian);
-    }
-    else {
-        dataView.setUint32(byteOffset, hi, littleEndian);
-        dataView.setUint32(byteOffset + 4, lo, littleEndian);
-    }
-}
-exports.setBigUint64 = setBigUint64;
 //# sourceMappingURL=pure.js.map

package/dist/bigint-polyfill/pure.js.map

@@ -1 +1 @@
-{"version":3,"file":"pure.js","sourceRoot":"","sources":["../../src/bigint-polyfill/pure.ts"],"names":[],"mappings":";;;AAAA,MAAM,QAAQ,GAAG,MAAM,CAAC,EAAE,CAAC,CAAA;AAE3B,SAAgB,WAAW,CACzB,QAAkB,EAClB,UAAkB,EAClB,YAAiC;IAEjC,MAAM,gBAAgB,GAAG,MAAM,CAAC,CAAC,CAAC,YAAY,CAAC,CAAA;IAC/C,MAAM,aAAa,GAAG,MAAM,CAAC,CAAC,YAAY,CAAC,CAAA;IAE3C,OAAO,CACL,CAAC,MAAM,CACL,QAAQ,CAAC,QAAQ,CAAC,UAAU,EAAE,YAAY,CAAC,GAAG,aAAa;QACzD,QAAQ,CAAC,QAAQ,CAAC,UAAU,GAAG,CAAC,EAAE,YAAY,CAAC,GAAG,gBAAgB,CACrE;QACC,QAAQ,CAAC;QACX,MAAM,CACJ,QAAQ,CAAC,SAAS,CAAC,UAAU,EAAE,YAAY,CAAC,GAAG,gBAAgB;YAC7D,QAAQ,CAAC,SAAS,CAAC,UAAU,GAAG,CAAC,EAAE,YAAY,CAAC,GAAG,aAAa,CACnE,CACF,CAAA;AACH,CAAC;AAnBD,kCAmBC;AAED,SAAgB,YAAY,CAC1B,QAAkB,EAClB,UAAkB,EAClB,YAAiC;IAEjC,MAAM,CAAC,GAAG,QAAQ,CAAC,SAAS,CAAC,UAAU,EAAE,YAAY,CAAC,CAAA;IACtD,MAAM,CAAC,GAAG,QAAQ,CAAC,SAAS,CAAC,UAAU,GAAG,CAAC,EAAE,YAAY,CAAC,CAAA;IAE1D,MAAM,gBAAgB,GAAG,MAAM,CAAC,CAAC,CAAC,YAAY,CAAC,CAAA;IAC/C,MAAM,aAAa,GAAG,MAAM,CAAC,CAAC,YAAY,CAAC,CAAA;IAE3C,4EAA4E;IAC5E,gDAAgD;IAChD,kCAAkC;IAClC,OAAO,CACL,CAAC,MAAM,CAAC,CAAC,GAAG,aAAa,GAAG,CAAC,GAAG,gBAAgB,CAAC,IAAI,QAAQ,CAAC;QAC9D,MAAM,CAAC,CAAC,GAAG,gBAAgB,GAAG,CAAC,GAAG,aAAa,CAAC,CACjD,CAAA;AACH,CAAC;AAlBD,oCAkBC;AAED,SAAgB,WAAW,CACzB,QAAkB,EAClB,UAAkB,EAClB,KAAa,EACb,YAAiC;IAEjC,MAAM,EAAE,GAAG,MAAM,CAAC,KAAK,IAAI,QAAQ,CAAC,CAAA;IACpC,MAAM,EAAE,GAAG,MAAM,CAAC,KAAK,GAAG,MAAM,CAAC,UAAU,CAAC,CAAC,CAAA;IAE7C,IAAI,YAAY,EAAE,CAAC;QACjB,QAAQ,CAAC,QAAQ,CAAC,UAAU,GAAG,CAAC,EAAE,EAAE,EAAE,YAAY,CAAC,CAAA;QACnD,QAAQ,CAAC,SAAS,CAAC,UAAU,EAAE,EAAE,EAAE,YAAY,CAAC,CAAA;IAClD,CAAC;SAAM,CAAC;QACN,QAAQ,CAAC,QAAQ,CAAC,UAAU,EAAE,EAAE,EAAE,YAAY,CAAC,CAAA;QAC/C,QAAQ,CAAC,SAAS,CAAC,UAAU,GAAG,CAAC,EAAE,EAAE,EAAE,YAAY,CAAC,CAAA;IACtD,CAAC;AACH,CAAC;AAhBD,kCAgBC;AAED,SAAgB,YAAY,CAC1B,QAAkB,EAClB,UAAkB,EAClB,KAAa,EACb,YAAiC;IAEjC,MAAM,EAAE,GAAG,MAAM,CAAC,KAAK,IAAI,QAAQ,CAAC,CAAA;IACpC,MAAM,EAAE,GAAG,MAAM,CAAC,KAAK,GAAG,MAAM,CAAC,UAAU,CAAC,CAAC,CAAA;IAE7C,IAAI,YAAY,EAAE,CAAC;QACjB,QAAQ,CAAC,SAAS,CAAC,UAAU,GAAG,CAAC,EAAE,EAAE,EAAE,YAAY,CAAC,CAAA;QACpD,QAAQ,CAAC,SAAS,CAAC,UAAU,EAAE,EAAE,EAAE,YAAY,CAAC,CAAA;IAClD,CAAC;SAAM,CAAC;QACN,QAAQ,CAAC,SAAS,CAAC,UAAU,EAAE,EAAE,EAAE,YAAY,CAAC,CAAA;QAChD,QAAQ,CAAC,SAAS,CAAC,UAAU,GAAG,CAAC,EAAE,EAAE,EAAE,YAAY,CAAC,CAAA;IACtD,CAAC;AACH,CAAC;AAhBD,oCAgBC"}
+{"version":3,"file":"pure.js","sourceRoot":"","sources":["../../src/bigint-polyfill/pure.ts"],"names":[],"mappings":";;AAEA,kCAmBC;AAED,oCAkBC;AAzCD,MAAM,QAAQ,GAAG,MAAM,CAAC,EAAE,CAAC,CAAA;AAE3B,SAAgB,WAAW,CACzB,QAAkB,EAClB,UAAkB,EAClB,YAAiC;IAEjC,MAAM,gBAAgB,GAAG,MAAM,CAAC,CAAC,CAAC,YAAY,CAAC,CAAA;IAC/C,MAAM,aAAa,GAAG,MAAM,CAAC,CAAC,YAAY,CAAC,CAAA;IAE3C,OAAO,CACL,CAAC,MAAM,CACL,QAAQ,CAAC,QAAQ,CAAC,UAAU,EAAE,YAAY,CAAC,GAAG,aAAa;QACzD,QAAQ,CAAC,QAAQ,CAAC,UAAU,GAAG,CAAC,EAAE,YAAY,CAAC,GAAG,gBAAgB,CACrE;QACC,QAAQ,CAAC;QACX,MAAM,CACJ,QAAQ,CAAC,SAAS,CAAC,UAAU,EAAE,YAAY,CAAC,GAAG,gBAAgB;YAC7D,QAAQ,CAAC,SAAS,CAAC,UAAU,GAAG,CAAC,EAAE,YAAY,CAAC,GAAG,aAAa,CACnE,CACF,CAAA;AACH,CAAC;AAED,SAAgB,YAAY,CAC1B,QAAkB,EAClB,UAAkB,EAClB,YAAiC;IAEjC,MAAM,CAAC,GAAG,QAAQ,CAAC,SAAS,CAAC,UAAU,EAAE,YAAY,CAAC,CAAA;IACtD,MAAM,CAAC,GAAG,QAAQ,CAAC,SAAS,CAAC,UAAU,GAAG,CAAC,EAAE,YAAY,CAAC,CAAA;IAE1D,MAAM,gBAAgB,GAAG,MAAM,CAAC,CAAC,CAAC,YAAY,CAAC,CAAA;IAC/C,MAAM,aAAa,GAAG,MAAM,CAAC,CAAC,YAAY,CAAC,CAAA;IAE3C,4EAA4E;IAC5E,gDAAgD;IAChD,kCAAkC;IAClC,OAAO,CACL,CAAC,MAAM,CAAC,CAAC,GAAG,aAAa,GAAG,CAAC,GAAG,gBAAgB,CAAC,IAAI,QAAQ,CAAC;QAC9D,MAAM,CAAC,CAAC,GAAG,gBAAgB,GAAG,CAAC,GAAG,aAAa,CAAC,CACjD,CAAA;AACH,CAAC"}

package/dist/bigwig.js

@@ -23,18 +23,13 @@ class BigWig extends bbi_1.BBI {
      */
     getView(scale, opts) {
         return __awaiter(this, void 0, void 0, function* () {
-            const { zoomLevels, refsByName, fileSize, isBigEndian, uncompressBufSize } = yield this.getHeader(opts);
+            const { zoomLevels, refsByName, isBigEndian, uncompressBufSize } = yield this.getHeader(opts);
             const basesPerPx = 1 / scale;
-            let maxLevel = zoomLevels.length;
-            if (!fileSize) {
-                // if we don't know the file size, we can't fetch the highest zoom level :-(
-                maxLevel -= 1;
-            }
+            const maxLevel = zoomLevels.length - 1;
             for (let i = maxLevel; i >= 0; i -= 1) {
                 const zh = zoomLevels[i];
                 if (zh && zh.reductionLevel <= 2 * basesPerPx) {
-                    const indexOffset = Number(zh.indexOffset);
-                    return new block_view_1.BlockView(this.bbi, refsByName, indexOffset, isBigEndian, uncompressBufSize > 0, 'summary');
+                    return new block_view_1.BlockView(this.bbi, refsByName, zh.indexOffset, isBigEndian, uncompressBufSize > 0, 'summary');
                 }
             }
             return this.getUnzoomedView(opts);

package/dist/bigwig.js.map

@@ -1 +1 @@
-{"version":3,"file":"bigwig.js","sourceRoot":"","sources":["../src/bigwig.ts"],"names":[],"mappings":";;;;;;;;;;;;AAAA,6CAAwC;AACxC,+BAA2C;AAE3C,MAAa,MAAO,SAAQ,SAAG;IAC7B;;;;;;;OAOG;IACa,OAAO,CAAC,KAAa,EAAE,IAAoB;;YACzD,MAAM,EAAE,UAAU,EAAE,UAAU,EAAE,QAAQ,EAAE,WAAW,EAAE,iBAAiB,EAAE,GACxE,MAAM,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,CAAA;YAC5B,MAAM,UAAU,GAAG,CAAC,GAAG,KAAK,CAAA;YAC5B,IAAI,QAAQ,GAAG,UAAU,CAAC,MAAM,CAAA;YAChC,IAAI,CAAC,QAAQ,EAAE,CAAC;gBACd,4EAA4E;gBAC5E,QAAQ,IAAI,CAAC,CAAA;YACf,CAAC;YAED,KAAK,IAAI,CAAC,GAAG,QAAQ,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC;gBACtC,MAAM,EAAE,GAAG,UAAU,CAAC,CAAC,CAAC,CAAA;gBACxB,IAAI,EAAE,IAAI,EAAE,CAAC,cAAc,IAAI,CAAC,GAAG,UAAU,EAAE,CAAC;oBAC9C,MAAM,WAAW,GAAG,MAAM,CAAC,EAAE,CAAC,WAAW,CAAC,CAAA;oBAE1C,OAAO,IAAI,sBAAS,CAClB,IAAI,CAAC,GAAG,EACR,UAAU,EACV,WAAW,EACX,WAAW,EACX,iBAAiB,GAAG,CAAC,EACrB,SAAS,CACV,CAAA;gBACH,CAAC;YACH,CAAC;YACD,OAAO,IAAI,CAAC,eAAe,CAAC,IAAI,CAAC,CAAA;QACnC,CAAC;KAAA;CACF;AApCD,wBAoCC"}
+{"version":3,"file":"bigwig.js","sourceRoot":"","sources":["../src/bigwig.ts"],"names":[],"mappings":";;;;;;;;;;;;AAAA,6CAAwC;AACxC,+BAA2C;AAE3C,MAAa,MAAO,SAAQ,SAAG;IAC7B;;;;;;;OAOG;IACa,OAAO,CAAC,KAAa,EAAE,IAAoB;;YACzD,MAAM,EAAE,UAAU,EAAE,UAAU,EAAE,WAAW,EAAE,iBAAiB,EAAE,GAC9D,MAAM,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,CAAA;YAC5B,MAAM,UAAU,GAAG,CAAC,GAAG,KAAK,CAAA;YAC5B,MAAM,QAAQ,GAAG,UAAU,CAAC,MAAM,GAAG,CAAC,CAAA;YAEtC,KAAK,IAAI,CAAC,GAAG,QAAQ,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC;gBACtC,MAAM,EAAE,GAAG,UAAU,CAAC,CAAC,CAAC,CAAA;gBACxB,IAAI,EAAE,IAAI,EAAE,CAAC,cAAc,IAAI,CAAC,GAAG,UAAU,EAAE,CAAC;oBAC9C,OAAO,IAAI,sBAAS,CAClB,IAAI,CAAC,GAAG,EACR,UAAU,EACV,EAAE,CAAC,WAAW,EACd,WAAW,EACX,iBAAiB,GAAG,CAAC,EACrB,SAAS,CACV,CAAA;gBACH,CAAC;YACH,CAAC;YACD,OAAO,IAAI,CAAC,eAAe,CAAC,IAAI,CAAC,CAAA;QACnC,CAAC;KAAA;CACF;AA9BD,wBA8BC"}

package/dist/block-view.d.ts

@@ -13,8 +13,8 @@ interface Options {
 /**
  * View into a subset of the data in a BigWig file.
  *
- * Adapted by Robert Buels and Colin Diesh from bigwig.js in the Dalliance Genome
- * Explorer by Thomas Down.
+ * Adapted by Robert Buels and Colin Diesh from bigwig.js in the Dalliance
+ * Genome Explorer by Thomas Down.
  * @constructs
  */
 export declare class BlockView {
@@ -26,16 +26,14 @@ export declare class BlockView {
     private blockType;
     private cirTreePromise?;
     private featureCache;
-    private leafParser;
-    private bigBedParser;
     constructor(bbi: GenericFilehandle, refsByName: any, cirTreeOffset: number, isBigEndian: boolean, isCompressed: boolean, blockType: string);
     readWigData(chrName: string, start: number, end: number, observer: Observer<Feature[]>, opts?: Options): Promise<void>;
     private parseSummaryBlock;
     private parseBigBedBlock;
     private parseBigWigBlock;
     readFeatures(observer: Observer<Feature[]>, blocks: {
-        offset: bigint;
-        length: bigint;
+        offset: number;
+        length: number;
     }[], opts?: Options): Promise<void>;
 }
 export {};