@gmod/cram 1.7.3 → 2.0.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/CHANGELOG.md +13 -2
- package/README.md +343 -24
- package/dist/cram-bundle.js +1 -1
- package/dist/cram-bundle.js.LICENSE.txt +7 -1
- package/dist/cramFile/container/index.js.map +1 -1
- package/dist/cramFile/file.d.ts +2 -2
- package/dist/cramFile/file.js +58 -50
- package/dist/cramFile/file.js.map +1 -1
- package/dist/cramFile/record.d.ts +1 -1
- package/dist/cramFile/record.js +1 -1
- package/dist/rans/constants.d.ts +4 -3
- package/dist/rans/constants.js.map +1 -1
- package/dist/rans/d04.js +1 -0
- package/dist/rans/d04.js.map +1 -1
- package/dist/rans/d14.js +1 -0
- package/dist/rans/d14.js.map +1 -1
- package/dist/rans/decoding.d.ts +16 -19
- package/dist/rans/decoding.js +1 -0
- package/dist/rans/decoding.js.map +1 -1
- package/dist/rans/frequencies.d.ts +2 -2
- package/dist/rans/frequencies.js +1 -0
- package/dist/rans/frequencies.js.map +1 -1
- package/dist/rans/index.js +1 -0
- package/dist/rans/index.js.map +1 -1
- package/esm/cramFile/container/index.js.map +1 -1
- package/esm/cramFile/file.d.ts +2 -2
- package/esm/cramFile/file.js +19 -13
- package/esm/cramFile/file.js.map +1 -1
- package/esm/cramFile/record.d.ts +1 -1
- package/esm/cramFile/record.js +1 -1
- package/esm/rans/constants.d.ts +4 -3
- package/esm/rans/constants.js.map +1 -1
- package/esm/rans/d04.js +1 -0
- package/esm/rans/d04.js.map +1 -1
- package/esm/rans/d14.js +1 -0
- package/esm/rans/d14.js.map +1 -1
- package/esm/rans/decoding.d.ts +16 -19
- package/esm/rans/decoding.js +1 -0
- package/esm/rans/decoding.js.map +1 -1
- package/esm/rans/frequencies.d.ts +2 -2
- package/esm/rans/frequencies.js +1 -0
- package/esm/rans/frequencies.js.map +1 -1
- package/esm/rans/index.js +1 -0
- package/esm/rans/index.js.map +1 -1
- package/package.json +14 -14
- package/src/cramFile/container/index.ts +4 -1
- package/src/cramFile/file.ts +25 -19
- package/src/cramFile/record.ts +1 -1
- package/src/rans/{d04.js → d04.ts} +1 -0
- package/src/rans/{d14.js → d14.ts} +1 -0
- package/src/rans/{decoding.js → decoding.ts} +1 -0
- package/src/rans/{frequencies.js → frequencies.ts} +1 -0
- package/src/rans/{index.js → index.ts} +1 -0
- package/src/typings/bzip2.d.ts +0 -7
- /package/src/rans/{constants.js → constants.ts} +0 -0
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/*!
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* Based on xzwasm (c) Steve Sanderson. License: MIT - https://github.com/SteveSanderson/xzwasm
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* Contains xz-embedded by Lasse Collin and Igor Pavlov. License: Public domain - https://tukaani.org/xz/embedded.html
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* and walloc (c) 2020 Igalia, S.L. License: MIT - https://github.com/wingo/walloc
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*/
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/*!
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* Determine if an object is a Buffer
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*
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* @license MIT
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*/
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/*! https://mths.be/punycode v1.
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/*! https://mths.be/punycode v1.4.1 by @mathias */
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/*! ieee754. BSD-3-Clause License. Feross Aboukhadijeh <https://feross.org/opensource> */
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{"version":3,"file":"index.js","sourceRoot":"","sources":["../../../src/cramFile/container/index.ts"],"names":[],"mappings":";;;;;;;;;;;;;;AAAA,yCAAiD;AAEjD,kCAA0D;AAC1D,qDAAgC;AAChC,4EAAgE;AAGhE,MAAqB,aAAa;IAChC,
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{"version":3,"file":"index.js","sourceRoot":"","sources":["../../../src/cramFile/container/index.ts"],"names":[],"mappings":";;;;;;;;;;;;;;AAAA,yCAAiD;AAEjD,kCAA0D;AAC1D,qDAAgC;AAChC,4EAAgE;AAGhE,MAAqB,aAAa;IAChC,YACS,IAAc,EACd,YAAoB;QADpB,SAAI,GAAJ,IAAI,CAAU;QACd,iBAAY,GAAZ,YAAY,CAAQ;IAC1B,CAAC;IAEJ,UAAU;IACV,SAAS;QACP,OAAO,IAAI,CAAC,oBAAoB,CAAC,IAAI,CAAC,YAAY,CAAC,CAAA;IACrD,CAAC;IAED,UAAU;IACJ,yBAAyB;;YAC7B,MAAM,eAAe,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;YAE9C,gFAAgF;YAChF,IAAI,CAAC,eAAe,CAAC,UAAU,EAAE;gBAC/B,OAAO,IAAI,CAAA;aACZ;YACD,MAAM,cAAc,GAAG,MAAM,IAAI,CAAC,IAAI,CAAC,iBAAiB,EAAE,CAAA;YAC1D,MAAM,KAAK,GAAG,MAAM,IAAI,CAAC,aAAa,EAAE,CAAA;YACxC,IAAI,KAAK,KAAK,SAAS,EAAE;gBACvB,OAAO,SAAS,CAAA;aACjB;YACD,IAAI,KAAK,CAAC,WAAW,KAAK,oBAAoB,EAAE;gBAC9C,MAAM,IAAI,2BAAkB,CAC1B,wBAAwB,KAAK,CAAC,WAAW,yDAAyD,CACnG,CAAA;aACF;YACD,MAAM,OAAO,GAAG,IAAA,gBAAS,EACvB,KAAK,CAAC,OAAO,EACb,cAAc,CAAC,qBAAqB,CAAC,MAAM,EAC3C,CAAC,EACD,KAAK,CAAC,eAAe,CACtB,CAAA;YACD,uCACK,KAAK,KACR,aAAa,EAAE,OAAO,IACvB;QACH,CAAC;KAAA;IAEK,aAAa;;YACjB,MAAM,eAAe,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;YAC9C,OAAO,IAAI,CAAC,IAAI,CAAC,SAAS,CAAC,eAAe,CAAC,YAAY,CAAC,CAAA;QAC1D,CAAC;KAAA;IAED,kFAAkF;IAClF,UAAU;IACJ,oBAAoB;;YACxB,MAAM,MAAM,GAAG,MAAM,IAAI,CAAC,yBAAyB,EAAE,CAAA;YACrD,IAAI,CAAC,MAAM,EAAE;gBACX,OAAO,SAAS,CAAA;aACjB;YACD,OAAO,IAAI,2BAA8B,CAAC,MAAM,CAAC,aAAa,CAAC,CAAA;QACjE,CAAC;KAAA;IAED,QAAQ,CAAC,aAAqB,EAAE,SAAiB;QAC/C,qEAAqE;QACrE,wCAAwC;QACxC,OAAO,IAAI,eAAS,CAAC,IAAI,EAAE,aAAa,EAAE,SAAS,CAAC,CAAA;IACtD,CAAC;IAEK,oBAAoB,CAAC,QAAgB;;YACzC,MAAM,cAAc,GAAG,MAAM,IAAI,CAAC,IAAI,CAAC,iBAAiB,EAAE,CAAA;YAC1D,MAAM,EAAE,oBAAoB,EAAE,oBAAoB,EAAE,GAAG,cAAc,CAAA;YACrE,MAAM,EAAE,IAAI,EAAE,QAAQ,EAAE,GAAG,MAAM,IAAI,CAAC,IAAI,CAAC,IAAI,EAAE,CAAA;YAEjD,IAAI,QAAQ,IAAI,QAAQ,EAAE;gBACxB,OAAO,SAAS,CAAA;aACjB;YAED,wEAAwE;YACxE,iDAAiD;YACjD,MAAM,MAAM,GAAG,MAAM,CAAC,WAAW,CAAC,oBAAoB,CAAC,SAAS,CAAC,CAAA;YACjE,MAAM,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,MAAM,EAAE,CAAC,EAAE,oBAAoB,CAAC,SAAS,EAAE,QAAQ,CAAC,CAAA;YACzE,MAAM,OAAO,GAAG,IAAA,gBAAS,EAAC,MAAM,EAAE,oBAAoB,CAAC,MAAM,CAAQ,CAAA;YACrE,MAAM,gBAAgB,GAAG,IAAA,eAAQ,EAAC,OAAO,CAAC,YAAY,CAAC,CAAA;YACvD,IAAI,QAAQ,GAAG,OAAO,CAAC,MAAM,IAAI,QAAQ,EAAE;gBACzC,OAAO,CAAC,IAAI,CACV,GAAG,IAAI,CAAC,IAAI,yBAAyB,QAAQ,4CAA4C,OAAO,CAAC,MAAM,yEAAyE,CACjL,CAAA;gBACD,OAAO,SAAS,CAAA;aACjB;YACD,MAAM,MAAM,GAAG,MAAM,CAAC,WAAW,CAC/B,oBAAoB,CAAC,SAAS,CAAC,OAAO,CAAC,YAAY,CAAC,CACrD,CAAA;YACD,MAAM,IAAI,CAAC,IAAI,CAAC,IAAI,CAClB,MAAM,EACN,CAAC,EACD,oBAAoB,CAAC,SAAS,CAAC,OAAO,CAAC,YAAY,CAAC,EACpD,QAAQ,GAAG,OAAO,CAAC,KAAK,GAAG,gBAAgB,CAC5C,CAAA;YACD,MAAM,OAAO,GAAG,IAAA,gBAAS,EAAC,MAAM,EAAE,oBAAoB,CAAC,MAAM,CAAC,CAAA;YAE9D,IAAI,IAAI,CAAC,IAAI,CAAC,iBAAiB,IAAI,OAAO,CAAC,KAAK,KAAK,SAAS,EAAE;gBAC9D,MAAM,IAAI,CAAC,IAAI,CAAC,UAAU,CACxB,QAAQ,EACR,OAAO,CAAC,KAAK,GAAG,OAAO,CAAC,KAAK,GAAG,gBAAgB,GAAG,CAAC,EACpD,OAAO,CAAC,KAAK,EACb,0CAA0C,QAAQ,EAAE,CACrD,CAAA;aACF;YAED,MAAM,cAAc,GAAG,MAAM,CAAC,MAAM,CAAC,OAAO,EAAE,OAAO,EAAE;gBACrD,KAAK,EAAE,OAAO,CAAC,KAAK,GAAG,OAAO,CAAC,KAAK,GAAG,gBAAgB;gBACvD,YAAY,EAAE,OAAO,CAAC,KAAK,GAAG,OAAO,CAAC,KAAK,GAAG,gBAAgB,GAAG,QAAQ;aAC1E,CAAC,CAAA;YAEF,OAAO,cAAc,CAAA;QACvB,CAAC;KAAA;CACF;AA9GD,gCA8GC;AAED,0DAA0D;KACvD,KAAK,CAAC,GAAG,CAAC;KACV,OAAO,CAAC,MAAM,CAAC,EAAE,CAAC,IAAA,kBAAW,EAAC,aAAa,EAAE,MAAM,CAAC,CAAC,CAAA"}
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package/dist/cramFile/file.d.ts
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/// <reference types="node" />
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import QuickLRU from 'quick-lru';
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import { Parser } from '@gmod/binary-parser';
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import { BlockHeader, CompressionMethod } from './sectionParsers';
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import CramContainer from './container';
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import { Parser } from '@gmod/binary-parser';
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import CramRecord from './record';
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import { Filehandle } from './filehandle';
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export type CramFileSource = {
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parser: Parser<T>;
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maxLength: number;
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}, position: number, size?: number, preReadBuffer?: undefined): Promise<import("./util").ParsedItem<T> | undefined>;
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_uncompress(compressionMethod: CompressionMethod, inputBuffer: Buffer, outputBuffer: Buffer): void
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_uncompress(compressionMethod: CompressionMethod, inputBuffer: Buffer, outputBuffer: Buffer): Promise<void>;
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readBlock(position: number): Promise<CramFileBlock | undefined>;
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}
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const unzip_1 = require("../unzip");
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const buffer_crc32_1 = __importDefault(require("buffer-crc32"));
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const quick_lru_1 = __importDefault(require("quick-lru"));
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const htscodecs_1 = __importDefault(require("@jkbonfield/htscodecs"));
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// @ts-expect-error
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const bzip2_1 = __importDefault(require("bzip2"));
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const xz_decompress_1 = require("xz-decompress");
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const errors_1 = require("../errors");
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const rans_1 = __importDefault(require("../rans"));
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const sectionParsers_1 = require("./sectionParsers");
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const htscodecs_1 = __importDefault(require("@jkbonfield/htscodecs"));
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function bufferToStream(buf) {
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return new ReadableStream({
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start(controller) {
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controller.enqueue(buf);
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controller.close();
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},
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}
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throw new Error('Detected big-endian machine, may be unable to run');
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});
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const result = (0, unzip_1.unzip)(inputBuffer);
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result.copy(outputBuffer);
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}
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do {
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}
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const decompressedResponse = new Response(new xz_decompress_1.XzReadableStream(bufferToStream(inputBuffer)));
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const ret = Buffer.from(yield decompressedResponse.arrayBuffer());
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}
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//htscodecs r4x8 is slower, but compatible.
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//htscodecs.r4x8_uncompress(inputBuffer, outputBuffer);
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}
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else if (compressionMethod === 'rans4x16') {
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}
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}
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else if (compressionMethod === 'fqzcomp') {
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htscodecs_1.default.fqzcomp_uncompress(inputBuffer, outputBuffer);
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}
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else if (compressionMethod === 'tok3') {
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htscodecs_1.default.tok3_uncompress(inputBuffer, outputBuffer);
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}
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else {
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throw new errors_1.CramUnimplementedError(`${compressionMethod} decompression not yet implemented`);
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}
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});
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yield this.read(compressedData, 0, blockHeader.compressedSize, blockContentPosition);
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this._uncompress(blockHeader.compressionMethod, compressedData, uncompressedData);
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yield this._uncompress(blockHeader.compressionMethod, compressedData, uncompressedData);
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1
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+
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|
|
@@ -107,7 +107,7 @@ export default class CramRecord {
|
|
|
107
107
|
/**
|
|
108
108
|
* Annotates this feature with the given reference sequence basepair
|
|
109
109
|
* information. This will add a `sub` and a `ref` item to base
|
|
110
|
-
*
|
|
110
|
+
* substitution read features given the actual substituted and reference
|
|
111
111
|
* base pairs, and will make the `getReadSequence()` method work.
|
|
112
112
|
*
|
|
113
113
|
* @param {object} refRegion
|
package/dist/cramFile/record.js
CHANGED
|
@@ -336,7 +336,7 @@ class CramRecord {
|
|
|
336
336
|
/**
|
|
337
337
|
* Annotates this feature with the given reference sequence basepair
|
|
338
338
|
* information. This will add a `sub` and a `ref` item to base
|
|
339
|
-
*
|
|
339
|
+
* substitution read features given the actual substituted and reference
|
|
340
340
|
* base pairs, and will make the `getReadSequence()` method work.
|
|
341
341
|
*
|
|
342
342
|
* @param {object} refRegion
|
package/dist/rans/constants.d.ts
CHANGED
|
@@ -1,3 +1,4 @@
|
|
|
1
|
-
|
|
2
|
-
|
|
3
|
-
|
|
1
|
+
declare const TF_SHIFT = 12;
|
|
2
|
+
declare const TOTFREQ: number;
|
|
3
|
+
declare const RANS_BYTE_L: number;
|
|
4
|
+
export { TF_SHIFT, TOTFREQ, RANS_BYTE_L };
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"constants.js","sourceRoot":"","sources":["../../src/rans/constants.
|
|
1
|
+
{"version":3,"file":"constants.js","sourceRoot":"","sources":["../../src/rans/constants.ts"],"names":[],"mappings":";;;AAAA,MAAM,QAAQ,GAAG,EAAE,CAAA;AAIV,4BAAQ;AAHjB,MAAM,OAAO,GAAG,CAAC,IAAI,QAAQ,CAAA;AAGV,0BAAO;AAF1B,MAAM,WAAW,GAAG,CAAC,IAAI,EAAE,CAAA;AAEC,kCAAW"}
|
package/dist/rans/d04.js
CHANGED
|
@@ -3,6 +3,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
|
|
|
3
3
|
return (mod && mod.__esModule) ? mod : { "default": mod };
|
|
4
4
|
};
|
|
5
5
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
6
|
+
//@ts-nocheck
|
|
6
7
|
const errors_1 = require("../errors");
|
|
7
8
|
const constants_1 = require("./constants");
|
|
8
9
|
const decoding_1 = __importDefault(require("./decoding"));
|
package/dist/rans/d04.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"d04.js","sourceRoot":"","sources":["../../src/rans/d04.
|
|
1
|
+
{"version":3,"file":"d04.js","sourceRoot":"","sources":["../../src/rans/d04.ts"],"names":[],"mappings":";;;;;AAAA,aAAa;AACb,sCAA8C;AAE9C,2CAAsC;AACtC,0DAAiC;AAEjC,SAAwB,UAAU;AAChC,gBAAgB,CAAC,KAAK;AACtB,yBAAyB,CAAC,CAAC;AAC3B,uBAAuB,CAAC,IAAI;AAC5B,gBAAgB,CAAC,GAAG;IAEpB,IAAI,KAAK,GAAG,KAAK,CAAC,MAAM,EAAE,CAAA;IAC1B,IAAI,KAAK,GAAG,KAAK,CAAC,MAAM,EAAE,CAAA;IAC1B,IAAI,KAAK,GAAG,KAAK,CAAC,MAAM,EAAE,CAAA;IAC1B,IAAI,KAAK,GAAG,KAAK,CAAC,MAAM,EAAE,CAAA;IAE1B,MAAM,SAAS,CAAC,UAAU,GAAG,GAAG,CAAC,SAAS,EAAE,CAAA;IAC5C,MAAM,SAAS,CAAC,SAAS,GAAG,UAAU,GAAG,CAAC,CAAC,CAAA;IAC3C,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,SAAS,EAAE,CAAC,IAAI,CAAC,EAAE;QACrC,MAAM,UAAU,CAAC,EAAE,GAAG,CAAC,CAAC,CAAC,CAAC,kBAAQ,CAAC,GAAG,CAAC,KAAK,EAAE,oBAAQ,CAAC,CAAC,CAAA;QACxD,MAAM,UAAU,CAAC,EAAE,GAAG,CAAC,CAAC,CAAC,CAAC,kBAAQ,CAAC,GAAG,CAAC,KAAK,EAAE,oBAAQ,CAAC,CAAC,CAAA;QACxD,MAAM,UAAU,CAAC,EAAE,GAAG,CAAC,CAAC,CAAC,CAAC,kBAAQ,CAAC,GAAG,CAAC,KAAK,EAAE,oBAAQ,CAAC,CAAC,CAAA;QACxD,MAAM,UAAU,CAAC,EAAE,GAAG,CAAC,CAAC,CAAC,CAAC,kBAAQ,CAAC,GAAG,CAAC,KAAK,EAAE,oBAAQ,CAAC,CAAC,CAAA;QAExD,GAAG,CAAC,KAAK,CAAC,CAAC,EAAE,EAAE,CAAC,CAAA;QAChB,GAAG,CAAC,KAAK,CAAC,CAAC,GAAG,CAAC,EAAE,EAAE,CAAC,CAAA;QACpB,GAAG,CAAC,KAAK,CAAC,CAAC,GAAG,CAAC,EAAE,EAAE,CAAC,CAAA;QACpB,GAAG,CAAC,KAAK,CAAC,CAAC,GAAG,CAAC,EAAE,EAAE,CAAC,CAAA;QAEpB,KAAK,GAAG,kBAAQ,CAAC,iBAAiB,CAAC,KAAK,EAAE,IAAI,CAAC,IAAI,GAAG,EAAE,CAAC,EAAE,oBAAQ,CAAC,CAAA;QACpE,KAAK,GAAG,kBAAQ,CAAC,iBAAiB,CAAC,KAAK,EAAE,IAAI,CAAC,IAAI,GAAG,EAAE,CAAC,EAAE,oBAAQ,CAAC,CAAA;QACpE,KAAK,GAAG,kBAAQ,CAAC,iBAAiB,CAAC,KAAK,EAAE,IAAI,CAAC,IAAI,GAAG,EAAE,CAAC,EAAE,oBAAQ,CAAC,CAAA;QACpE,KAAK,GAAG,kBAAQ,CAAC,iBAAiB,CAAC,KAAK,EAAE,IAAI,CAAC,IAAI,GAAG,EAAE,CAAC,EAAE,oBAAQ,CAAC,CAAA;QAEpE,KAAK,GAAG,kBAAQ,CAAC,WAAW,CAAC,KAAK,EAAE,KAAK,CAAC,CAAA;QAC1C,KAAK,GAAG,kBAAQ,CAAC,WAAW,CAAC,KAAK,EAAE,KAAK,CAAC,CAAA;QAC1C,KAAK,GAAG,kBAAQ,CAAC,WAAW,CAAC,KAAK,EAAE,KAAK,CAAC,CAAA;QAC1C,KAAK,GAAG,kBAAQ,CAAC,WAAW,CAAC,KAAK,EAAE,KAAK,CAAC,CAAA;KAC3C;IAED,GAAG,CAAC,WAAW,CAAC,SAAS,CAAC,CAAA;IAC1B,IAAI,UAAU,CAAC,CAAC,CAAA;IAChB,QAAQ,UAAU,GAAG,CAAC,EAAE;QACtB,KAAK,CAAC;YACJ,MAAK;QACP,KAAK,CAAC;YACJ,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,kBAAQ,CAAC,GAAG,CAAC,KAAK,EAAE,oBAAQ,CAAC,CAAC,CAAA;YACtC,kBAAQ,CAAC,aAAa,CAAC,KAAK,EAAE,KAAK,EAAE,IAAI,CAAC,IAAI,GAAG,CAAC,CAAC,EAAE,oBAAQ,CAAC,CAAA;YAC9D,GAAG,CAAC,GAAG,CAAC,CAAC,CAAC,CAAA;YACV,MAAK;QAEP,KAAK,CAAC;YACJ,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,kBAAQ,CAAC,GAAG,CAAC,KAAK,EAAE,oBAAQ,CAAC,CAAC,CAAA;YACtC,kBAAQ,CAAC,aAAa,CAAC,KAAK,EAAE,KAAK,EAAE,IAAI,CAAC,IAAI,GAAG,CAAC,CAAC,EAAE,oBAAQ,CAAC,CAAA;YAC9D,GAAG,CAAC,GAAG,CAAC,CAAC,CAAC,CAAA;YAEV,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,kBAAQ,CAAC,GAAG,CAAC,KAAK,EAAE,oBAAQ,CAAC,CAAC,CAAA;YACtC,kBAAQ,CAAC,aAAa,CAAC,KAAK,EAAE,KAAK,EAAE,IAAI,CAAC,IAAI,GAAG,CAAC,CAAC,EAAE,oBAAQ,CAAC,CAAA;YAC9D,GAAG,CAAC,GAAG,CAAC,CAAC,CAAC,CAAA;YACV,MAAK;QAEP,KAAK,CAAC;YACJ,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,kBAAQ,CAAC,GAAG,CAAC,KAAK,EAAE,oBAAQ,CAAC,CAAC,CAAA;YACtC,kBAAQ,CAAC,aAAa,CAAC,KAAK,EAAE,KAAK,EAAE,IAAI,CAAC,IAAI,GAAG,CAAC,CAAC,EAAE,oBAAQ,CAAC,CAAA;YAC9D,GAAG,CAAC,GAAG,CAAC,CAAC,CAAC,CAAA;YAEV,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,kBAAQ,CAAC,GAAG,CAAC,KAAK,EAAE,oBAAQ,CAAC,CAAC,CAAA;YACtC,kBAAQ,CAAC,aAAa,CAAC,KAAK,EAAE,KAAK,EAAE,IAAI,CAAC,IAAI,GAAG,CAAC,CAAC,EAAE,oBAAQ,CAAC,CAAA;YAC9D,GAAG,CAAC,GAAG,CAAC,CAAC,CAAC,CAAA;YAEV,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,kBAAQ,CAAC,GAAG,CAAC,KAAK,EAAE,oBAAQ,CAAC,CAAC,CAAA;YACtC,kBAAQ,CAAC,aAAa,CAAC,KAAK,EAAE,KAAK,EAAE,IAAI,CAAC,IAAI,GAAG,CAAC,CAAC,EAAE,oBAAQ,CAAC,CAAA;YAC9D,GAAG,CAAC,GAAG,CAAC,CAAC,CAAC,CAAA;YACV,MAAK;QAEP;YACE,MAAM,IAAI,2BAAkB,CAC1B,sDAAsD,CACvD,CAAA;KACJ;IAED,GAAG,CAAC,WAAW,CAAC,CAAC,CAAC,CAAA;AACpB,CAAC;AA7ED,6BA6EC"}
|
package/dist/rans/d14.js
CHANGED
|
@@ -3,6 +3,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
|
|
|
3
3
|
return (mod && mod.__esModule) ? mod : { "default": mod };
|
|
4
4
|
};
|
|
5
5
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
6
|
+
//@ts-nocheck
|
|
6
7
|
const constants_1 = require("./constants");
|
|
7
8
|
const decoding_1 = __importDefault(require("./decoding"));
|
|
8
9
|
function uncompress(
|
package/dist/rans/d14.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"d14.js","sourceRoot":"","sources":["../../src/rans/d14.
|
|
1
|
+
{"version":3,"file":"d14.js","sourceRoot":"","sources":["../../src/rans/d14.ts"],"names":[],"mappings":";;;;;AAAA,aAAa;AACb,2CAAsC;AACtC,0DAAiC;AAEjC,SAAwB,UAAU;AAChC,gBAAgB,CAAC,KAAK;AACtB,gBAAgB,CAAC,MAAM;AACvB,2BAA2B,CAAC,CAAC;AAC7B,yBAAyB,CAAC,IAAI;IAE9B,MAAM,SAAS,CAAC,UAAU,GAAG,MAAM,CAAC,SAAS,EAAE,CAAA;IAC/C,IAAI,KAAK,GAAG,KAAK,CAAC,MAAM,EAAE,CAAA;IAC1B,IAAI,KAAK,GAAG,KAAK,CAAC,MAAM,EAAE,CAAA;IAC1B,IAAI,KAAK,GAAG,KAAK,CAAC,MAAM,EAAE,CAAA;IAC1B,IAAI,KAAK,GAAG,KAAK,CAAC,MAAM,EAAE,CAAA;IAE1B,MAAM,SAAS,CAAC,IAAI,GAAG,UAAU,IAAI,CAAC,CAAA;IACtC,IAAI,SAAS,CAAC,EAAE,GAAG,CAAC,CAAA;IACpB,IAAI,SAAS,CAAC,EAAE,GAAG,IAAI,CAAA;IACvB,IAAI,SAAS,CAAC,EAAE,GAAG,CAAC,GAAG,IAAI,CAAA;IAC3B,IAAI,SAAS,CAAC,EAAE,GAAG,CAAC,GAAG,IAAI,CAAA;IAC3B,IAAI,SAAS,CAAC,EAAE,GAAG,CAAC,CAAA;IACpB,IAAI,SAAS,CAAC,EAAE,GAAG,CAAC,CAAA;IACpB,IAAI,SAAS,CAAC,EAAE,GAAG,CAAC,CAAA;IACpB,IAAI,SAAS,CAAC,EAAE,GAAG,CAAC,CAAA;IACpB,OAAO,EAAE,GAAG,IAAI,EAAE,EAAE,IAAI,CAAC,EAAE,EAAE,IAAI,CAAC,EAAE,EAAE,IAAI,CAAC,EAAE,EAAE,IAAI,CAAC,EAAE;QACpD,MAAM,SAAS,CAAC,EAAE,GAAG,IAAI,GAAG,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,kBAAQ,CAAC,GAAG,CAAC,KAAK,EAAE,oBAAQ,CAAC,CAAC,CAAA;QAClE,MAAM,SAAS,CAAC,EAAE,GAAG,IAAI,GAAG,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,kBAAQ,CAAC,GAAG,CAAC,KAAK,EAAE,oBAAQ,CAAC,CAAC,CAAA;QAClE,MAAM,SAAS,CAAC,EAAE,GAAG,IAAI,GAAG,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,kBAAQ,CAAC,GAAG,CAAC,KAAK,EAAE,oBAAQ,CAAC,CAAC,CAAA;QAClE,MAAM,SAAS,CAAC,EAAE,GAAG,IAAI,GAAG,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,kBAAQ,CAAC,GAAG,CAAC,KAAK,EAAE,oBAAQ,CAAC,CAAC,CAAA;QAElE,MAAM,CAAC,KAAK,CAAC,EAAE,EAAE,EAAE,CAAC,CAAA;QACpB,MAAM,CAAC,KAAK,CAAC,EAAE,EAAE,EAAE,CAAC,CAAA;QACpB,MAAM,CAAC,KAAK,CAAC,EAAE,EAAE,EAAE,CAAC,CAAA;QACpB,MAAM,CAAC,KAAK,CAAC,EAAE,EAAE,EAAE,CAAC,CAAA;QAEpB,KAAK,GAAG,kBAAQ,CAAC,iBAAiB,CAAC,KAAK,EAAE,IAAI,CAAC,EAAE,CAAC,CAAC,EAAE,CAAC,EAAE,oBAAQ,CAAC,CAAA;QACjE,KAAK,GAAG,kBAAQ,CAAC,iBAAiB,CAAC,KAAK,EAAE,IAAI,CAAC,EAAE,CAAC,CAAC,EAAE,CAAC,EAAE,oBAAQ,CAAC,CAAA;QACjE,KAAK,GAAG,kBAAQ,CAAC,iBAAiB,CAAC,KAAK,EAAE,IAAI,CAAC,EAAE,CAAC,CAAC,EAAE,CAAC,EAAE,oBAAQ,CAAC,CAAA;QACjE,KAAK,GAAG,kBAAQ,CAAC,iBAAiB,CAAC,KAAK,EAAE,IAAI,CAAC,EAAE,CAAC,CAAC,EAAE,CAAC,EAAE,oBAAQ,CAAC,CAAA;QAEjE,KAAK,GAAG,kBAAQ,CAAC,WAAW,CAAC,KAAK,EAAE,KAAK,CAAC,CAAA;QAC1C,KAAK,GAAG,kBAAQ,CAAC,WAAW,CAAC,KAAK,EAAE,KAAK,CAAC,CAAA;QAC1C,KAAK,GAAG,kBAAQ,CAAC,WAAW,CAAC,KAAK,EAAE,KAAK,CAAC,CAAA;QAC1C,KAAK,GAAG,kBAAQ,CAAC,WAAW,CAAC,KAAK,EAAE,KAAK,CAAC,CAAA;QAE1C,EAAE,GAAG,EAAE,CAAA;QACP,EAAE,GAAG,EAAE,CAAA;QACP,EAAE,GAAG,EAAE,CAAA;QACP,EAAE,GAAG,EAAE,CAAA;KACR;IAED,YAAY;IACZ,OAAO,EAAE,GAAG,UAAU,EAAE,EAAE,IAAI,CAAC,EAAE;QAC/B,MAAM,SAAS,CAAC,EAAE,GAAG,IAAI,GAAG,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,kBAAQ,CAAC,GAAG,CAAC,KAAK,EAAE,oBAAQ,CAAC,CAAC,CAAA;QAClE,MAAM,CAAC,KAAK,CAAC,EAAE,EAAE,EAAE,CAAC,CAAA;QACpB,KAAK,GAAG,kBAAQ,CAAC,aAAa,CAAC,KAAK,EAAE,KAAK,EAAE,IAAI,CAAC,EAAE,CAAC,CAAC,EAAE,CAAC,EAAE,oBAAQ,CAAC,CAAA;QACpE,EAAE,GAAG,EAAE,CAAA;KACR;AACH,CAAC;AAvDD,6BAuDC"}
|
package/dist/rans/decoding.d.ts
CHANGED
|
@@ -1,30 +1,27 @@
|
|
|
1
|
-
export default Decode;
|
|
2
|
-
declare namespace Decode {
|
|
3
|
-
export { FC };
|
|
4
|
-
export { AriDecoder };
|
|
5
|
-
export { Symbol };
|
|
6
|
-
export { symbolInit };
|
|
7
|
-
export { advanceStep };
|
|
8
|
-
export { advanceSymbolStep };
|
|
9
|
-
export { get };
|
|
10
|
-
export { advanceSymbol };
|
|
11
|
-
export { renormalize };
|
|
12
|
-
}
|
|
13
1
|
declare class FC {
|
|
14
|
-
|
|
15
|
-
C: any;
|
|
2
|
+
constructor();
|
|
16
3
|
}
|
|
17
4
|
declare class AriDecoder {
|
|
18
|
-
|
|
19
|
-
R: any;
|
|
5
|
+
constructor();
|
|
20
6
|
}
|
|
21
7
|
declare class Symbol {
|
|
22
|
-
|
|
23
|
-
freq: any;
|
|
8
|
+
constructor();
|
|
24
9
|
}
|
|
25
10
|
declare function symbolInit(sym: any, start: any, freq: any): void;
|
|
26
11
|
declare function advanceStep(r: any, start: any, freq: any, scaleBits: any): number;
|
|
27
12
|
declare function advanceSymbolStep(r: any, sym: any, scaleBits: any): number;
|
|
28
|
-
declare function get(r: any, scaleBits: any): number;
|
|
13
|
+
declare function get(/* final int */ r: any, /* final int */ scaleBits: any): number;
|
|
29
14
|
declare function advanceSymbol(r: any, pptr: any, sym: any, scaleBits: any): any;
|
|
30
15
|
declare function renormalize(r: any, pptr: any): any;
|
|
16
|
+
declare const Decode: {
|
|
17
|
+
FC: typeof FC;
|
|
18
|
+
AriDecoder: typeof AriDecoder;
|
|
19
|
+
Symbol: typeof Symbol;
|
|
20
|
+
symbolInit: typeof symbolInit;
|
|
21
|
+
advanceStep: typeof advanceStep;
|
|
22
|
+
advanceSymbolStep: typeof advanceSymbolStep;
|
|
23
|
+
get: typeof get;
|
|
24
|
+
advanceSymbol: typeof advanceSymbol;
|
|
25
|
+
renormalize: typeof renormalize;
|
|
26
|
+
};
|
|
27
|
+
export default Decode;
|
package/dist/rans/decoding.js
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"decoding.js","sourceRoot":"","sources":["../../src/rans/decoding.
|
|
1
|
+
{"version":3,"file":"decoding.js","sourceRoot":"","sources":["../../src/rans/decoding.ts"],"names":[],"mappings":";;AAAA,aAAa;AACb,sCAA8C;AAE9C,2CAAyC;AAEzC,MAAM,EAAE;IACN,YAAY;IACZ;QACE,IAAI,CAAC,CAAC,GAAG,SAAS,CAAA;QAClB,IAAI,CAAC,CAAC,GAAG,SAAS,CAAA;IACpB,CAAC;CACF;AAED,MAAM,UAAU;IACd,+BAA+B;IAC/B,YAAY;IAEZ;QACE,IAAI,CAAC,EAAE,GAAG,IAAI,KAAK,CAAC,GAAG,CAAC,CAAA;QACxB,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,IAAI,CAAC,EAAE,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE;YAC1C,IAAI,CAAC,EAAE,CAAC,CAAC,CAAC,GAAG,IAAI,EAAE,EAAE,CAAA;SACtB;QACD,IAAI,CAAC,CAAC,GAAG,IAAI,CAAA;IACf,CAAC;CACF;AAED,MAAM,MAAM;IACV,gCAAgC;IAChC,iCAAiC;IACjC;QACE,IAAI,CAAC,KAAK,GAAG,SAAS,CAAA;QACtB,IAAI,CAAC,IAAI,GAAG,SAAS,CAAA;IACvB,CAAC;CACF;AAED,oEAAoE;AACpE,SAAS,UAAU,CAAC,GAAG,EAAE,KAAK,EAAE,IAAI;IAClC,IAAI,CAAC,CAAC,KAAK,IAAI,CAAC,IAAI,EAAE,CAAC,EAAE;QACvB,MAAM,IAAI,2BAAkB,CAAC,kCAAkC,CAAC,CAAA;KACjE;IACD,IAAI,CAAC,CAAC,IAAI,IAAI,CAAC,CAAC,IAAI,EAAE,CAAC,GAAG,KAAK,CAAC,EAAE;QAChC,MAAM,IAAI,2BAAkB,CAAC,iCAAiC,CAAC,CAAA;KAChE;IACD,GAAG,CAAC,KAAK,GAAG,KAAK,CAAA;IACjB,GAAG,CAAC,IAAI,GAAG,IAAI,CAAA;AACjB,CAAC;AAED,2EAA2E;AAC3E,sEAAsE;AACtE,oBAAoB;AACpB,wCAAwC;AACxC,wBAAwB,CAAC,SAAS,WAAW;AAC3C,eAAe,CAAC,CAAC;AACjB,eAAe,CAAC,KAAK;AACrB,eAAe,CAAC,IAAI;AACpB,eAAe,CAAC,SAAS;IAEzB,eAAe,CAAC,MAAM,IAAI,GAAG,CAAC,CAAC,IAAI,SAAS,CAAC,GAAG,CAAC,CAAA;IAEjD,cAAc;IACd,OAAO,IAAI,GAAG,CAAC,CAAC,IAAI,SAAS,CAAC,GAAG,CAAC,CAAC,GAAG,IAAI,CAAC,GAAG,KAAK,CAAA;AACrD,CAAC;AAED,wDAAwD;AACxD,iBAAiB,CAAC,SAAS,iBAAiB;AAC1C,eAAe,CAAC,CAAC;AACjB,yBAAyB,CAAC,GAAG;AAC7B,eAAe,CAAC,SAAS;IAEzB,OAAO,WAAW,CAAC,CAAC,EAAE,GAAG,CAAC,KAAK,EAAE,GAAG,CAAC,IAAI,EAAE,SAAS,CAAC,CAAA;AACvD,CAAC;AAED,0EAA0E;AAC1E,gBAAgB,CAAC,SAAS,GAAG,CAAC,eAAe,CAAC,CAAC,EAAE,eAAe,CAAC,SAAS;IACxE,OAAO,CAAC,GAAG,CAAC,CAAC,CAAC,IAAI,SAAS,CAAC,GAAG,CAAC,CAAC,CAAA;AACnC,CAAC;AAED,2EAA2E;AAC3E,sEAAsE;AACtE,oBAAoB;AACpB,iEAAiE;AACjE,wBAAwB,CAAC,SAAS,OAAO;AACvC,SAAS,CAAC,CAAC;AACX,sBAAsB,CAAC,IAAI;AAC3B,eAAe,CAAC,KAAK;AACrB,eAAe,CAAC,IAAI;AACpB,eAAe,CAAC,SAAS;IAEzB,eAAe,CAAC,MAAM,IAAI,GAAG,CAAC,CAAC,IAAI,SAAS,CAAC,GAAG,CAAC,CAAA;IAEjD,cAAc;IACd,CAAC,GAAG,IAAI,GAAG,CAAC,CAAC,IAAI,SAAS,CAAC,GAAG,CAAC,CAAC,GAAG,IAAI,CAAC,GAAG,KAAK,CAAA;IAEhD,eAAe;IACf,IAAI,CAAC,GAAG,uBAAW,EAAE;QACnB,GAAG;YACD,eAAe,CAAC,MAAM,CAAC,GAAG,IAAI,GAAG,IAAI,CAAC,GAAG,EAAE,CAAA;YAC3C,CAAC,GAAG,CAAC,CAAC,IAAI,CAAC,CAAC,GAAG,CAAC,CAAA;SACjB,QAAQ,CAAC,GAAG,uBAAW,EAAC;KAC1B;IAED,OAAO,CAAC,CAAA;AACV,CAAC;AAED,oDAAoD;AACpD,iBAAiB,CAAC,SAAS,aAAa;AACtC,eAAe,CAAC,CAAC;AACjB,sBAAsB,CAAC,IAAI;AAC3B,yBAAyB,CAAC,GAAG;AAC7B,eAAe,CAAC,SAAS;IAEzB,OAAO,OAAO,CAAC,CAAC,EAAE,IAAI,EAAE,GAAG,CAAC,KAAK,EAAE,GAAG,CAAC,IAAI,EAAE,SAAS,CAAC,CAAA;AACzD,CAAC;AAED,gBAAgB;AAChB,iBAAiB,CAAC,SAAS,WAAW;AACpC,SAAS,CAAC,CAAC;AACX,sBAAsB,CAAC,IAAI;IAE3B,eAAe;IACf,IAAI,CAAC,GAAG,uBAAW,EAAE;QACnB,GAAG;YACD,CAAC,GAAG,CAAC,CAAC,IAAI,CAAC,CAAC,GAAG,CAAC,IAAI,GAAG,IAAI,CAAC,GAAG,EAAE,CAAC,CAAA;SACnC,QAAQ,CAAC,GAAG,uBAAW,EAAC;KAC1B;IAED,OAAO,CAAC,CAAA;AACV,CAAC;AAED,MAAM,MAAM,GAAG;IACb,EAAE;IACF,UAAU;IACV,MAAM;IACN,UAAU;IACV,WAAW;IACX,iBAAiB;IACjB,GAAG;IACH,aAAa;IACb,WAAW;CACZ,CAAA;AAED,kBAAe,MAAM,CAAA"}
|
|
@@ -1,2 +1,2 @@
|
|
|
1
|
-
export function readStatsO0(cp: any, decoder: any, syms: any): void;
|
|
2
|
-
export function readStatsO1(cp: any, D: any, syms: any): void;
|
|
1
|
+
export declare function readStatsO0(cp: any, decoder: any, syms: any): void;
|
|
2
|
+
export declare function readStatsO1(cp: any, D: any, syms: any): void;
|
package/dist/rans/frequencies.js
CHANGED
|
@@ -4,6 +4,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
|
|
|
4
4
|
};
|
|
5
5
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
6
6
|
exports.readStatsO1 = exports.readStatsO0 = void 0;
|
|
7
|
+
//@ts-nocheck
|
|
7
8
|
const errors_1 = require("../errors");
|
|
8
9
|
const constants_1 = require("./constants");
|
|
9
10
|
const decoding_1 = __importDefault(require("./decoding"));
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"frequencies.js","sourceRoot":"","sources":["../../src/rans/frequencies.
|
|
1
|
+
{"version":3,"file":"frequencies.js","sourceRoot":"","sources":["../../src/rans/frequencies.ts"],"names":[],"mappings":";;;;;;AAAA,aAAa;AACb,sCAA8C;AAE9C,2CAAqC;AACrC,0DAAiC;AAEjC,SAAS,MAAM,CAAC,MAAM;IACpB,IAAI,CAAC,MAAM,EAAE;QACX,MAAM,IAAI,2BAAkB,CAAC,kBAAkB,CAAC,CAAA;KACjD;AACH,CAAC;AAED,SAAgB,WAAW;AACzB,gBAAgB,CAAC,EAAE;AACnB,yBAAyB,CAAC,OAAO;AACjC,8BAA8B,CAAC,IAAI;IAEnC,2CAA2C;IAC3C,IAAI,GAAG,GAAG,CAAC,CAAA;IACX,IAAI,CAAC,GAAG,CAAC,CAAA;IACT,IAAI,CAAC,GAAG,EAAE,CAAC,GAAG,EAAE,GAAG,IAAI,CAAA;IACvB,GAAG;QACD,IAAI,OAAO,CAAC,EAAE,CAAC,CAAC,CAAC,IAAI,IAAI,EAAE;YACzB,OAAO,CAAC,EAAE,CAAC,CAAC,CAAC,GAAG,IAAI,kBAAQ,CAAC,EAAE,EAAE,CAAA;SAClC;QACD,OAAO,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,EAAE,CAAC,GAAG,EAAE,GAAG,IAAI,CAAA;QACjC,IAAI,OAAO,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,IAAI,GAAG,EAAE;YAC1B,OAAO,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,GAAG,CAAA;YACvB,OAAO,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,OAAO,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,GAAG,CAAC,IAAI,CAAC,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,EAAE,GAAG,IAAI,CAAC,CAAA;SACrE;QACD,OAAO,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,CAAA;QAEnB,kBAAQ,CAAC,UAAU,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,OAAO,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,OAAO,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;QAE9D,gCAAgC;QAChC,IAAI,CAAC,OAAO,CAAC,CAAC,EAAE;YACd,OAAO,CAAC,CAAC,GAAG,IAAI,KAAK,CAAC,mBAAO,CAAC,CAAA;SAC/B;QACD,OAAO,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,EAAE,CAAC,EAAE,CAAC,GAAG,OAAO,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;QAEzC,CAAC,IAAI,OAAO,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;QAEpB,IAAI,GAAG,KAAK,CAAC,IAAI,CAAC,GAAG,CAAC,KAAK,CAAC,IAAI,GAAG,EAAE,CAAC,SAAS,CAAC,EAAE,CAAC,QAAQ,EAAE,CAAC,CAAC,EAAE;YAC/D,CAAC,GAAG,EAAE,CAAC,GAAG,EAAE,GAAG,IAAI,CAAA;YACnB,GAAG,GAAG,EAAE,CAAC,GAAG,EAAE,GAAG,IAAI,CAAA;SACtB;aAAM,IAAI,GAAG,KAAK,CAAC,EAAE;YACpB,GAAG,IAAI,CAAC,CAAA;YACR,CAAC,IAAI,CAAC,CAAA;SACP;aAAM;YACL,CAAC,GAAG,EAAE,CAAC,GAAG,EAAE,GAAG,IAAI,CAAA;SACpB;KACF,QAAQ,CAAC,KAAK,CAAC,EAAC;IAEjB,MAAM,CAAC,CAAC,GAAG,mBAAO,CAAC,CAAA;AACrB,CAAC;AA1CD,kCA0CC;AAED,SAAgB,WAAW;AACzB,gBAAgB,CAAC,EAAE;AACnB,4BAA4B,CAAC,CAAC;AAC9B,gCAAgC,CAAC,IAAI;IAErC,IAAI,IAAI,GAAG,CAAC,CAAA;IACZ,IAAI,CAAC,GAAG,IAAI,GAAG,EAAE,CAAC,GAAG,EAAE,CAAA;IACvB,GAAG;QACD,IAAI,IAAI,GAAG,CAAC,CAAA;QACZ,IAAI,CAAC,GAAG,CAAC,CAAA;QACT,IAAI,CAAC,GAAG,IAAI,GAAG,EAAE,CAAC,GAAG,EAAE,CAAA;QACvB,IAAI,CAAC,CAAC,CAAC,CAAC,IAAI,IAAI,EAAE;YAChB,CAAC,CAAC,CAAC,CAAC,GAAG,IAAI,kBAAQ,CAAC,UAAU,EAAE,CAAA;SACjC;QACD,GAAG;YACD,IAAI,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,IAAI,IAAI,EAAE;gBACtB,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,GAAG,IAAI,kBAAQ,CAAC,EAAE,EAAE,CAAA;aAC/B;YACD,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,IAAI,GAAG,EAAE,CAAC,GAAG,EAAE,CAAA;YAC9B,IAAI,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,IAAI,GAAG,EAAE;gBACvB,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,GAAG,CAAA;gBACpB,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,GAAG,CAAC,IAAI,CAAC,CAAC,GAAG,CAAC,IAAI,GAAG,EAAE,CAAC,GAAG,EAAE,CAAC,CAAA;aAC/D;YACD,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,CAAA;YAEhB,IAAI,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,KAAK,CAAC,EAAE;gBACtB,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,mBAAO,CAAA;aACvB;YAED,IAAI,IAAI,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,IAAI,IAAI,EAAE;gBACtB,IAAI,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,IAAI,kBAAQ,CAAC,aAAa,EAAE,CAAA;aAC1C;YAED,kBAAQ,CAAC,UAAU,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;YAE3D,gCAAgC;YAChC,IAAI,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,IAAI,IAAI,EAAE;gBAClB,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,IAAI,KAAK,CAAC,mBAAO,CAAC,CAAA;aAC5B;YACD,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,EAAE,CAAC,EAAE,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;YAEnC,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;YACjB,MAAM,CAAC,CAAC,IAAI,mBAAO,CAAC,CAAA;YAEpB,IAAI,IAAI,KAAK,CAAC,IAAI,CAAC,GAAG,CAAC,KAAK,CAAC,IAAI,GAAG,EAAE,CAAC,SAAS,CAAC,EAAE,CAAC,QAAQ,EAAE,CAAC,CAAC,EAAE;gBAChE,CAAC,GAAG,IAAI,GAAG,EAAE,CAAC,GAAG,EAAE,CAAA;gBACnB,IAAI,GAAG,IAAI,GAAG,EAAE,CAAC,GAAG,EAAE,CAAA;aACvB;iBAAM,IAAI,IAAI,KAAK,CAAC,EAAE;gBACrB,IAAI,IAAI,CAAC,CAAA;gBACT,CAAC,IAAI,CAAC,CAAA;aACP;iBAAM;gBACL,CAAC,GAAG,IAAI,GAAG,EAAE,CAAC,GAAG,EAAE,CAAA;aACpB;SACF,QAAQ,CAAC,KAAK,CAAC,EAAC;QAEjB,IAAI,IAAI,KAAK,CAAC,IAAI,CAAC,GAAG,CAAC,KAAK,CAAC,IAAI,GAAG,EAAE,CAAC,SAAS,CAAC,EAAE,CAAC,QAAQ,EAAE,CAAC,CAAC,EAAE;YAChE,CAAC,GAAG,IAAI,GAAG,EAAE,CAAC,GAAG,EAAE,CAAA;YACnB,IAAI,GAAG,IAAI,GAAG,EAAE,CAAC,GAAG,EAAE,CAAA;SACvB;aAAM,IAAI,IAAI,KAAK,CAAC,EAAE;YACrB,IAAI,IAAI,CAAC,CAAA;YACT,CAAC,IAAI,CAAC,CAAA;SACP;aAAM;YACL,CAAC,GAAG,IAAI,GAAG,EAAE,CAAC,GAAG,EAAE,CAAA;SACpB;KACF,QAAQ,CAAC,KAAK,CAAC,EAAC;AACnB,CAAC;AAjED,kCAiEC"}
|
package/dist/rans/index.js
CHANGED
|
@@ -3,6 +3,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
|
|
|
3
3
|
return (mod && mod.__esModule) ? mod : { "default": mod };
|
|
4
4
|
};
|
|
5
5
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
6
|
+
//@ts-nocheck
|
|
6
7
|
const errors_1 = require("../errors");
|
|
7
8
|
const decoding_1 = __importDefault(require("./decoding"));
|
|
8
9
|
const frequencies_1 = require("./frequencies");
|
package/dist/rans/index.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/rans/index.
|
|
1
|
+
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/rans/index.ts"],"names":[],"mappings":";;;;;AAAA,aAAa;AACb,sCAA8C;AAE9C,0DAAiC;AACjC,+CAAwD;AAExD,gDAAuB;AACvB,gDAAuB;AAEvB,wCAAwC;AACxC,6CAA6C;AAC7C,MAAM,SAAS,CAAC,eAAe,GAAG,CAAC,CAAA;AACnC,uCAAuC;AACvC,iEAAiE;AAEjE,eAAe;AACf,iBAAiB;AAEjB,oDAAoD;AACpD,gBAAgB;AAChB,4CAA4C;AAC5C,6DAA6D;AAC7D,0EAA0E;AAC1E,YAAY;AACZ,QAAQ;AACR,IAAI;AAEJ,gGAAgG;AAChG,kCAAkC;AAClC,+BAA+B;AAE/B,iCAAiC;AACjC,iDAAiD;AAEjD,uBAAuB;AACvB,qBAAqB;AACrB,qDAAqD;AACrD,oBAAoB;AACpB,qDAAqD;AAErD,mBAAmB;AACnB,0EAA0E;AAC1E,QAAQ;AACR,IAAI;AAEJ,oEAAoE;AACpE,+EAA+E;AAC/E,yFAAyF;AACzF,2BAA2B;AAC3B,sDAAsD;AACtD,gDAAgD;AAChD,mEAAmE;AACnE,8CAA8C;AAC9C,sBAAsB;AACtB,IAAI;AAEJ,+DAA+D;AAC/D,qEAAqE;AACrE,mDAAmD;AACnD,oDAAoD;AACpD,2DAA2D;AAC3D,wCAAwC;AAExC,gEAAgE;AAChE,gEAAgE;AAEhE,6CAA6C;AAC7C,oFAAoF;AAEpF,sBAAsB;AACtB,2EAA2E;AAE3E,mEAAmE;AACnE,oCAAoC;AACpC,sBAAsB;AACtB,IAAI;AAEJ,+DAA+D;AAC/D,qEAAqE;AACrE,mDAAmD;AACnD,oDAAoD;AACpD,2DAA2D;AAC3D,wCAAwC;AAExC,kEAAkE;AAClE,kEAAkE;AAElE,6CAA6C;AAC7C,oFAAoF;AAEpF,sBAAsB;AACtB,2EAA2E;AAE3E,mEAAmE;AACnE,oCAAoC;AACpC,sBAAsB;AACtB,IAAI;AAEJ,kFAAkF;AAClF,8IAA8I;AAC9I,6DAA6D;AAC7D,sCAAsC;AACtC,oCAAoC;AACpC,8CAA8C;AAC9C,gEAAgE;AAChE,+DAA+D;AAC/D,sCAAsC;AACtC,kFAAkF;AAClF,8CAA8C;AAC9C,wBAAwB;AACxB,IAAI;AAEJ,SAAiC,oBAAoB;AACnD,uBAAuB,CAAC,KAAK;AAC7B,uBAAuB,CAAC,GAAG;IAE3B,wCAAwC;IACxC,MAAM,CAAC,GAAG,IAAI,kBAAQ,CAAC,UAAU,EAAE,CAAA;IACnC,MAAM,IAAI,GAAG,IAAI,KAAK,CAAC,GAAG,CAAC,CAAA;IAC3B,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,IAAI,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE;QACvC,IAAI,CAAC,CAAC,CAAC,GAAG,IAAI,kBAAQ,CAAC,MAAM,EAAE,CAAA;KAChC;IAED,IAAA,yBAAW,EAAC,KAAK,EAAE,CAAC,EAAE,IAAI,CAAC,CAAA;IAE3B,IAAA,aAAG,EAAC,KAAK,EAAE,CAAC,EAAE,IAAI,EAAE,GAAG,CAAC,CAAA;IAExB,OAAO,GAAG,CAAA;AACZ,CAAC;AAED,SAAiC,oBAAoB;AACnD,sBAAsB,CAAC,KAAK;AAC5B,sBAAsB,CAAC,MAAM;IAE7B,MAAM,CAAC,GAAG,IAAI,KAAK,CAAC,GAAG,CAAC,CAAA;IACxB,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,CAAC,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE;QACpC,CAAC,CAAC,CAAC,CAAC,GAAG,IAAI,kBAAQ,CAAC,UAAU,EAAE,CAAA;KACjC;IACD,MAAM,iCAAiC,CAAC,IAAI,GAAG,IAAI,KAAK,CAAC,GAAG,CAAC,CAAA;IAC7D,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,IAAI,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE;QACvC,IAAI,CAAC,CAAC,CAAC,GAAG,IAAI,KAAK,CAAC,GAAG,CAAC,CAAA;QACxB,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,IAAI,CAAC,CAAC,CAAC,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE;YAC1C,IAAI,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,IAAI,kBAAQ,CAAC,MAAM,EAAE,CAAA;SACnC;KACF;IACD,IAAA,yBAAW,EAAC,KAAK,EAAE,CAAC,EAAE,IAAI,CAAC,CAAA;IAE3B,IAAA,aAAG,EAAC,KAAK,EAAE,MAAM,EAAE,CAAC,EAAE,IAAI,CAAC,CAAA;IAE3B,OAAO,MAAM,CAAA;AACf,CAAC;AAED,mEAAmE;AACnE,MAAM,UAAU;IACd,YAAY,UAAU,EAAE,oBAAoB,GAAG,CAAC;QAC9C,IAAI,CAAC,OAAO,GAAG,UAAU,CAAA;QACzB,IAAI,CAAC,SAAS,GAAG,oBAAoB,CAAA;QACrC,IAAI,CAAC,MAAM,GAAG,UAAU,CAAC,MAAM,CAAA;IACjC,CAAC;IAED,GAAG;QACD,MAAM,CAAC,GAAG,IAAI,CAAC,OAAO,CAAC,IAAI,CAAC,SAAS,CAAC,CAAA;QACtC,IAAI,CAAC,SAAS,IAAI,CAAC,CAAA;QACnB,OAAO,CAAC,CAAA;IACV,CAAC;IAED,OAAO;QACL,OAAO,IAAI,CAAC,GAAG,EAAE,CAAA;IACnB,CAAC;IAED,SAAS,CAAC,QAAQ;QAChB,OAAO,IAAI,CAAC,OAAO,CAAC,QAAQ,CAAC,CAAA;IAC/B,CAAC;IAED,QAAQ;QACN,OAAO,IAAI,CAAC,SAAS,CAAA;IACvB,CAAC;IAED,GAAG,CAAC,GAAG;QACL,IAAI,CAAC,OAAO,CAAC,IAAI,CAAC,SAAS,CAAC,GAAG,GAAG,CAAA;QAClC,IAAI,CAAC,SAAS,IAAI,CAAC,CAAA;QACnB,OAAO,GAAG,CAAA;IACZ,CAAC;IAED,KAAK,CAAC,QAAQ,EAAE,GAAG;QACjB,IAAI,CAAC,OAAO,CAAC,QAAQ,CAAC,GAAG,GAAG,CAAA;QAC5B,OAAO,GAAG,CAAA;IACZ,CAAC;IAED,WAAW,CAAC,GAAG;QACb,IAAI,CAAC,SAAS,GAAG,GAAG,CAAA;QACpB,OAAO,GAAG,CAAA;IACZ,CAAC;IAED,MAAM;QACJ,MAAM,CAAC,GAAG,IAAI,CAAC,OAAO,CAAC,WAAW,CAAC,IAAI,CAAC,SAAS,CAAC,CAAA;QAClD,IAAI,CAAC,SAAS,IAAI,CAAC,CAAA;QACnB,OAAO,CAAC,CAAA;IACV,CAAC;IAED,SAAS;QACP,OAAO,IAAI,CAAC,OAAO,CAAC,MAAM,GAAG,IAAI,CAAC,SAAS,CAAA;IAC7C,CAAC;CACF;AAED,uEAAuE;AACvE,SAAwB,UAAU,CAChC,WAAW,EACX,YAAY,EACZ,oBAAoB,GAAG,CAAC;IAExB,IAAI,WAAW,CAAC,MAAM,KAAK,CAAC,EAAE;QAC5B,YAAY,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;QACpB,OAAO,YAAY,CAAA;KACpB;IAED,MAAM,KAAK,GAAG,IAAI,UAAU,CAAC,WAAW,EAAE,oBAAoB,CAAC,CAAA;IAC/D,wCAAwC;IAExC,MAAM,KAAK,GAAG,KAAK,CAAC,GAAG,EAAE,CAAA;IACzB,IAAI,KAAK,KAAK,CAAC,IAAI,KAAK,KAAK,CAAC,EAAE;QAC9B,MAAM,IAAI,2BAAkB,CAAC,sBAAsB,KAAK,EAAE,CAAC,CAAA;KAC5D;IAED,MAAM,SAAS,CAAC,SAAS,GAAG,KAAK,CAAC,MAAM,EAAE,CAAA;IAC1C,IAAI,SAAS,KAAK,KAAK,CAAC,SAAS,EAAE,GAAG,eAAe,EAAE;QACrD,MAAM,IAAI,2BAAkB,CAAC,yBAAyB,CAAC,CAAA;KACxD;IAED,MAAM,SAAS,CAAC,UAAU,GAAG,KAAK,CAAC,MAAM,EAAE,CAAA;IAC3C,MAAM,MAAM,GAAG,IAAI,UAAU,CAAC,YAAY,IAAI,MAAM,CAAC,WAAW,CAAC,UAAU,CAAC,CAAC,CAAA;IAC7E,gCAAgC;IAEhC,IAAI,MAAM,CAAC,MAAM,GAAG,UAAU,EAAE;QAC9B,MAAM,IAAI,2BAAkB,CAC1B,kCAAkC,UAAU,SAAS,CACtD,CAAA;KACF;IAED,QAAQ,KAAK,EAAE;QACb,KAAK,CAAC;YACJ,OAAO,oBAAoB,CAAC,KAAK,EAAE,MAAM,CAAC,CAAA;QAE5C,KAAK,CAAC;YACJ,OAAO,oBAAoB,CAAC,KAAK,EAAE,MAAM,CAAC,CAAA;QAE5C;YACE,MAAM,IAAI,2BAAkB,CAAC,uBAAuB,KAAK,EAAE,CAAC,CAAA;KAC/D;AACH,CAAC;AA3CD,6BA2CC"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../../src/cramFile/container/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,kBAAkB,EAAE,MAAM,cAAc,CAAA;AAEjD,OAAO,EAAE,QAAQ,EAAE,SAAS,EAAE,WAAW,EAAE,MAAM,SAAS,CAAA;AAC1D,OAAO,SAAS,MAAM,UAAU,CAAA;AAChC,OAAO,8BAA8B,MAAM,qBAAqB,CAAA;AAGhE,MAAM,CAAC,OAAO,OAAO,aAAa;IAChC,
|
|
1
|
+
{"version":3,"file":"index.js","sourceRoot":"","sources":["../../../src/cramFile/container/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,kBAAkB,EAAE,MAAM,cAAc,CAAA;AAEjD,OAAO,EAAE,QAAQ,EAAE,SAAS,EAAE,WAAW,EAAE,MAAM,SAAS,CAAA;AAC1D,OAAO,SAAS,MAAM,UAAU,CAAA;AAChC,OAAO,8BAA8B,MAAM,qBAAqB,CAAA;AAGhE,MAAM,CAAC,OAAO,OAAO,aAAa;IAChC,YACS,IAAc,EACd,YAAoB;QADpB,SAAI,GAAJ,IAAI,CAAU;QACd,iBAAY,GAAZ,YAAY,CAAQ;IAC1B,CAAC;IAEJ,UAAU;IACV,SAAS;QACP,OAAO,IAAI,CAAC,oBAAoB,CAAC,IAAI,CAAC,YAAY,CAAC,CAAA;IACrD,CAAC;IAED,UAAU;IACV,KAAK,CAAC,yBAAyB;QAC7B,MAAM,eAAe,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QAE9C,gFAAgF;QAChF,IAAI,CAAC,eAAe,CAAC,UAAU,EAAE;YAC/B,OAAO,IAAI,CAAA;SACZ;QACD,MAAM,cAAc,GAAG,MAAM,IAAI,CAAC,IAAI,CAAC,iBAAiB,EAAE,CAAA;QAC1D,MAAM,KAAK,GAAG,MAAM,IAAI,CAAC,aAAa,EAAE,CAAA;QACxC,IAAI,KAAK,KAAK,SAAS,EAAE;YACvB,OAAO,SAAS,CAAA;SACjB;QACD,IAAI,KAAK,CAAC,WAAW,KAAK,oBAAoB,EAAE;YAC9C,MAAM,IAAI,kBAAkB,CAC1B,wBAAwB,KAAK,CAAC,WAAW,yDAAyD,CACnG,CAAA;SACF;QACD,MAAM,OAAO,GAAG,SAAS,CACvB,KAAK,CAAC,OAAO,EACb,cAAc,CAAC,qBAAqB,CAAC,MAAM,EAC3C,CAAC,EACD,KAAK,CAAC,eAAe,CACtB,CAAA;QACD,OAAO;YACL,GAAG,KAAK;YACR,aAAa,EAAE,OAAO;SACvB,CAAA;IACH,CAAC;IAED,KAAK,CAAC,aAAa;QACjB,MAAM,eAAe,GAAG,MAAM,IAAI,CAAC,SAAS,EAAE,CAAA;QAC9C,OAAO,IAAI,CAAC,IAAI,CAAC,SAAS,CAAC,eAAe,CAAC,YAAY,CAAC,CAAA;IAC1D,CAAC;IAED,kFAAkF;IAClF,UAAU;IACV,KAAK,CAAC,oBAAoB;QACxB,MAAM,MAAM,GAAG,MAAM,IAAI,CAAC,yBAAyB,EAAE,CAAA;QACrD,IAAI,CAAC,MAAM,EAAE;YACX,OAAO,SAAS,CAAA;SACjB;QACD,OAAO,IAAI,8BAA8B,CAAC,MAAM,CAAC,aAAa,CAAC,CAAA;IACjE,CAAC;IAED,QAAQ,CAAC,aAAqB,EAAE,SAAiB;QAC/C,qEAAqE;QACrE,wCAAwC;QACxC,OAAO,IAAI,SAAS,CAAC,IAAI,EAAE,aAAa,EAAE,SAAS,CAAC,CAAA;IACtD,CAAC;IAED,KAAK,CAAC,oBAAoB,CAAC,QAAgB;QACzC,MAAM,cAAc,GAAG,MAAM,IAAI,CAAC,IAAI,CAAC,iBAAiB,EAAE,CAAA;QAC1D,MAAM,EAAE,oBAAoB,EAAE,oBAAoB,EAAE,GAAG,cAAc,CAAA;QACrE,MAAM,EAAE,IAAI,EAAE,QAAQ,EAAE,GAAG,MAAM,IAAI,CAAC,IAAI,CAAC,IAAI,EAAE,CAAA;QAEjD,IAAI,QAAQ,IAAI,QAAQ,EAAE;YACxB,OAAO,SAAS,CAAA;SACjB;QAED,wEAAwE;QACxE,iDAAiD;QACjD,MAAM,MAAM,GAAG,MAAM,CAAC,WAAW,CAAC,oBAAoB,CAAC,SAAS,CAAC,CAAA;QACjE,MAAM,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,MAAM,EAAE,CAAC,EAAE,oBAAoB,CAAC,SAAS,EAAE,QAAQ,CAAC,CAAA;QACzE,MAAM,OAAO,GAAG,SAAS,CAAC,MAAM,EAAE,oBAAoB,CAAC,MAAM,CAAQ,CAAA;QACrE,MAAM,gBAAgB,GAAG,QAAQ,CAAC,OAAO,CAAC,YAAY,CAAC,CAAA;QACvD,IAAI,QAAQ,GAAG,OAAO,CAAC,MAAM,IAAI,QAAQ,EAAE;YACzC,OAAO,CAAC,IAAI,CACV,GAAG,IAAI,CAAC,IAAI,yBAAyB,QAAQ,4CAA4C,OAAO,CAAC,MAAM,yEAAyE,CACjL,CAAA;YACD,OAAO,SAAS,CAAA;SACjB;QACD,MAAM,MAAM,GAAG,MAAM,CAAC,WAAW,CAC/B,oBAAoB,CAAC,SAAS,CAAC,OAAO,CAAC,YAAY,CAAC,CACrD,CAAA;QACD,MAAM,IAAI,CAAC,IAAI,CAAC,IAAI,CAClB,MAAM,EACN,CAAC,EACD,oBAAoB,CAAC,SAAS,CAAC,OAAO,CAAC,YAAY,CAAC,EACpD,QAAQ,GAAG,OAAO,CAAC,KAAK,GAAG,gBAAgB,CAC5C,CAAA;QACD,MAAM,OAAO,GAAG,SAAS,CAAC,MAAM,EAAE,oBAAoB,CAAC,MAAM,CAAC,CAAA;QAE9D,IAAI,IAAI,CAAC,IAAI,CAAC,iBAAiB,IAAI,OAAO,CAAC,KAAK,KAAK,SAAS,EAAE;YAC9D,MAAM,IAAI,CAAC,IAAI,CAAC,UAAU,CACxB,QAAQ,EACR,OAAO,CAAC,KAAK,GAAG,OAAO,CAAC,KAAK,GAAG,gBAAgB,GAAG,CAAC,EACpD,OAAO,CAAC,KAAK,EACb,0CAA0C,QAAQ,EAAE,CACrD,CAAA;SACF;QAED,MAAM,cAAc,GAAG,MAAM,CAAC,MAAM,CAAC,OAAO,EAAE,OAAO,EAAE;YACrD,KAAK,EAAE,OAAO,CAAC,KAAK,GAAG,OAAO,CAAC,KAAK,GAAG,gBAAgB;YACvD,YAAY,EAAE,OAAO,CAAC,KAAK,GAAG,OAAO,CAAC,KAAK,GAAG,gBAAgB,GAAG,QAAQ;SAC1E,CAAC,CAAA;QAEF,OAAO,cAAc,CAAA;IACvB,CAAC;CACF;AAED,0DAA0D;KACvD,KAAK,CAAC,GAAG,CAAC;KACV,OAAO,CAAC,MAAM,CAAC,EAAE,CAAC,WAAW,CAAC,aAAa,EAAE,MAAM,CAAC,CAAC,CAAA"}
|
package/esm/cramFile/file.d.ts
CHANGED
|
@@ -1,8 +1,8 @@
|
|
|
1
1
|
/// <reference types="node" />
|
|
2
2
|
import QuickLRU from 'quick-lru';
|
|
3
|
+
import { Parser } from '@gmod/binary-parser';
|
|
3
4
|
import { BlockHeader, CompressionMethod } from './sectionParsers';
|
|
4
5
|
import CramContainer from './container';
|
|
5
|
-
import { Parser } from '@gmod/binary-parser';
|
|
6
6
|
import CramRecord from './record';
|
|
7
7
|
import { Filehandle } from './filehandle';
|
|
8
8
|
export type CramFileSource = {
|
|
@@ -108,6 +108,6 @@ export default class CramFile {
|
|
|
108
108
|
parser: Parser<T>;
|
|
109
109
|
maxLength: number;
|
|
110
110
|
}, position: number, size?: number, preReadBuffer?: undefined): Promise<import("./util").ParsedItem<T> | undefined>;
|
|
111
|
-
_uncompress(compressionMethod: CompressionMethod, inputBuffer: Buffer, outputBuffer: Buffer): void
|
|
111
|
+
_uncompress(compressionMethod: CompressionMethod, inputBuffer: Buffer, outputBuffer: Buffer): Promise<void>;
|
|
112
112
|
readBlock(position: number): Promise<CramFileBlock | undefined>;
|
|
113
113
|
}
|
package/esm/cramFile/file.js
CHANGED
|
@@ -1,14 +1,25 @@
|
|
|
1
1
|
import { unzip } from '../unzip';
|
|
2
2
|
import crc32 from 'buffer-crc32';
|
|
3
3
|
import QuickLRU from 'quick-lru';
|
|
4
|
+
import htscodecs from '@jkbonfield/htscodecs';
|
|
5
|
+
// @ts-expect-error
|
|
6
|
+
import bzip2 from 'bzip2';
|
|
7
|
+
import { XzReadableStream } from 'xz-decompress';
|
|
4
8
|
import { CramMalformedError, CramUnimplementedError } from '../errors';
|
|
5
9
|
import ransuncompress from '../rans';
|
|
6
10
|
import { cramFileDefinition as cramFileDefinitionParser, getSectionParsers, } from './sectionParsers';
|
|
7
|
-
import htscodecs from '@jkbonfield/htscodecs';
|
|
8
11
|
import CramContainer from './container';
|
|
9
12
|
import { open } from '../io';
|
|
10
13
|
import { parseItem, tinyMemoize } from './util';
|
|
11
14
|
import { parseHeaderText } from '../sam';
|
|
15
|
+
function bufferToStream(buf) {
|
|
16
|
+
return new ReadableStream({
|
|
17
|
+
start(controller) {
|
|
18
|
+
controller.enqueue(buf);
|
|
19
|
+
controller.close();
|
|
20
|
+
},
|
|
21
|
+
});
|
|
22
|
+
}
|
|
12
23
|
//source:https://abdulapopoola.com/2019/01/20/check-endianness-with-javascript/
|
|
13
24
|
function getEndianness() {
|
|
14
25
|
const uInt32 = new Uint32Array([0x11223344]);
|
|
@@ -44,16 +55,6 @@ export default class CramFile {
|
|
|
44
55
|
throw new Error('Detected big-endian machine, may be unable to run');
|
|
45
56
|
}
|
|
46
57
|
}
|
|
47
|
-
// toString() {
|
|
48
|
-
// if (this.file.filename) {
|
|
49
|
-
// return this.file.filename
|
|
50
|
-
// }
|
|
51
|
-
// if (this.file.url) {
|
|
52
|
-
// return this.file.url
|
|
53
|
-
// }
|
|
54
|
-
//
|
|
55
|
-
// return '(cram file)'
|
|
56
|
-
// }
|
|
57
58
|
// can just read this object like a filehandle
|
|
58
59
|
read(buffer, offset, length, position) {
|
|
59
60
|
return this.file.read(buffer, offset, length, position);
|
|
@@ -218,7 +219,7 @@ export default class CramFile {
|
|
|
218
219
|
}
|
|
219
220
|
return data;
|
|
220
221
|
}
|
|
221
|
-
_uncompress(compressionMethod, inputBuffer, outputBuffer) {
|
|
222
|
+
async _uncompress(compressionMethod, inputBuffer, outputBuffer) {
|
|
222
223
|
if (compressionMethod === 'gzip') {
|
|
223
224
|
const result = unzip(inputBuffer);
|
|
224
225
|
result.copy(outputBuffer);
|
|
@@ -237,6 +238,11 @@ export default class CramFile {
|
|
|
237
238
|
}
|
|
238
239
|
} while (chunk != -1);
|
|
239
240
|
}
|
|
241
|
+
else if (compressionMethod === 'lzma') {
|
|
242
|
+
const decompressedResponse = new Response(new XzReadableStream(bufferToStream(inputBuffer)));
|
|
243
|
+
const ret = Buffer.from(await decompressedResponse.arrayBuffer());
|
|
244
|
+
ret.copy(outputBuffer);
|
|
245
|
+
}
|
|
240
246
|
else if (compressionMethod === 'rans') {
|
|
241
247
|
ransuncompress(inputBuffer, outputBuffer);
|
|
242
248
|
//htscodecs r4x8 is slower, but compatible.
|
|
@@ -276,7 +282,7 @@ export default class CramFile {
|
|
|
276
282
|
if (blockHeader.compressionMethod !== 'raw') {
|
|
277
283
|
const compressedData = Buffer.allocUnsafe(blockHeader.compressedSize);
|
|
278
284
|
await this.read(compressedData, 0, blockHeader.compressedSize, blockContentPosition);
|
|
279
|
-
this._uncompress(blockHeader.compressionMethod, compressedData, uncompressedData);
|
|
285
|
+
await this._uncompress(blockHeader.compressionMethod, compressedData, uncompressedData);
|
|
280
286
|
}
|
|
281
287
|
else {
|
|
282
288
|
await this.read(uncompressedData, 0, blockHeader.uncompressedSize, blockContentPosition);
|