@gmod/bbi 3.0.1 → 4.0.1
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 -4
- package/dist/bbi.d.ts +5 -5
- package/dist/bbi.js +14 -21
- package/dist/bbi.js.map +1 -1
- package/dist/bigbed.d.ts +11 -4
- package/dist/bigbed.js +18 -12
- package/dist/bigbed.js.map +1 -1
- package/dist/bigwig.d.ts +1 -1
- package/dist/bigwig.js +2 -2
- package/dist/bigwig.js.map +1 -1
- package/dist/{blockView.d.ts → block-view.d.ts} +1 -1
- package/dist/{blockView.js → block-view.js} +25 -17
- package/dist/block-view.js.map +1 -0
- package/dist/range.js +3 -4
- package/dist/range.js.map +1 -1
- package/dist/unzip.d.ts +1 -2
- package/dist/unzip.js +1 -1
- package/dist/unzip.js.map +1 -1
- package/dist/util.js +12 -12
- package/dist/util.js.map +1 -1
- package/esm/bbi.d.ts +5 -5
- package/esm/bbi.js +13 -20
- package/esm/bbi.js.map +1 -1
- package/esm/bigbed.d.ts +11 -4
- package/esm/bigbed.js +7 -12
- package/esm/bigbed.js.map +1 -1
- package/esm/bigwig.d.ts +1 -1
- package/esm/bigwig.js +1 -1
- package/esm/bigwig.js.map +1 -1
- package/esm/{blockView.d.ts → block-view.d.ts} +1 -1
- package/esm/{blockView.js → block-view.js} +25 -17
- package/esm/block-view.js.map +1 -0
- package/esm/range.js +3 -4
- package/esm/range.js.map +1 -1
- package/esm/unzip.d.ts +1 -2
- package/esm/unzip.js +1 -2
- package/esm/unzip.js.map +1 -1
- package/esm/util.js +12 -12
- package/esm/util.js.map +1 -1
- package/package.json +15 -15
- package/src/bbi.ts +29 -35
- package/src/bigbed.ts +11 -23
- package/src/bigwig.ts +1 -1
- package/src/{blockView.ts → block-view.ts} +30 -21
- package/src/range.ts +3 -4
- package/src/unzip.ts +1 -2
- package/src/util.ts +11 -11
- package/dist/blockView.js.map +0 -1
- package/esm/blockView.js.map +0 -1
- package/src/declare.d.ts +0 -2
package/dist/util.js.map
CHANGED
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@@ -1 +1 @@
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1
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-
{"version":3,"file":"util.js","sourceRoot":"","sources":["../src/util.ts"],"names":[],"mappings":";;;;;;;;;;;;AAAA,sDAAsD;AACtD,MAAa,UAAW,SAAQ,KAAK;IAGnC,YAAmB,OAAe;QAChC,KAAK,CAAC,OAAO,CAAC,CAAA;QACd,IAAI,CAAC,IAAI,GAAG,aAAa,CAAA;IAC3B,CAAC;CACF;AAPD,gCAOC;AACD,iCAAiC;AACjC,gDAAgD;AAChD,SAAgB,WAAW,CAAC,MAA4C;IACtE,MAAM,CAAC,IAAI,CAAC,CAAC,EAAE,EAAE,EAAE,EAAE,EAAE,CAAC,MAAM,CAAC,EAAE,CAAC,MAAM,CAAC,GAAG,MAAM,CAAC,EAAE,CAAC,MAAM,CAAC,CAAC,CAAA;IAE9D,MAAM,WAAW,GAAG,EAAE,CAAA;IACtB,IAAI,SAAS,CAAA;IACb,IAAI,YAAY,CAAA;IAChB,KAAK,
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1
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+
{"version":3,"file":"util.js","sourceRoot":"","sources":["../src/util.ts"],"names":[],"mappings":";;;;;;;;;;;;AAAA,sDAAsD;AACtD,MAAa,UAAW,SAAQ,KAAK;IAGnC,YAAmB,OAAe;QAChC,KAAK,CAAC,OAAO,CAAC,CAAA;QACd,IAAI,CAAC,IAAI,GAAG,aAAa,CAAA;IAC3B,CAAC;CACF;AAPD,gCAOC;AACD,iCAAiC;AACjC,gDAAgD;AAChD,SAAgB,WAAW,CAAC,MAA4C;IACtE,MAAM,CAAC,IAAI,CAAC,CAAC,EAAE,EAAE,EAAE,EAAE,EAAE,CAAC,MAAM,CAAC,EAAE,CAAC,MAAM,CAAC,GAAG,MAAM,CAAC,EAAE,CAAC,MAAM,CAAC,CAAC,CAAA;IAE9D,MAAM,WAAW,GAAG,EAAE,CAAA;IACtB,IAAI,SAAS,CAAA;IACb,IAAI,YAAY,CAAA;IAChB,KAAK,MAAM,KAAK,IAAI,MAAM,EAAE;QAC1B,IACE,SAAS;YACT,YAAY;YACZ,MAAM,CAAC,KAAK,CAAC,MAAM,CAAC,GAAG,YAAY,IAAI,IAAI,EAC3C;YACA,SAAS,CAAC,MAAM,GAAG,MAAM,CACvB,MAAM,CAAC,SAAS,CAAC,MAAM,CAAC;gBACtB,MAAM,CAAC,KAAK,CAAC,MAAM,CAAC;gBACpB,YAAY;gBACZ,MAAM,CAAC,KAAK,CAAC,MAAM,CAAC,CACvB,CAAA;YACD,SAAS,CAAC,MAAM,CAAC,IAAI,CAAC,KAAK,CAAC,CAAA;SAC7B;aAAM;YACL,WAAW,CAAC,IAAI,CACd,CAAC,SAAS,GAAG;gBACX,MAAM,EAAE,CAAC,KAAK,CAAC;gBACf,MAAM,EAAE,KAAK,CAAC,MAAM;gBACpB,MAAM,EAAE,KAAK,CAAC,MAAM;aACrB,CAAC,CACH,CAAA;SACF;QACD,YAAY,GAAG,MAAM,CAAC,SAAS,CAAC,MAAM,CAAC,GAAG,MAAM,CAAC,SAAS,CAAC,MAAM,CAAC,CAAA;KACnE;IAED,OAAO,WAAW,CAAA;AACpB,CAAC;AAhCD,kCAgCC;AAED;;;;;;;;;;GAUG;AACH,SAAgB,gBAAgB,CAAC,MAAoB;IACnD,IAAI,CAAC,MAAM,EAAE;QACX,OAAM;KACP;IAED,IAAI,MAAM,CAAC,OAAO,EAAE;QAClB,8BAA8B;QAC9B,IAAI,OAAO,YAAY,KAAK,WAAW,EAAE;YACvC,MAAM,CAAC,GAAG,IAAI,UAAU,CAAC,SAAS,CAAC,CAAA;YACnC,CAAC,CAAC,IAAI,GAAG,aAAa,CAAA;YACtB,MAAM,CAAC,CAAA;SACR;aAAM;YACL,MAAM,IAAI,YAAY,CAAC,SAAS,EAAE,YAAY,CAAC,CAAA;SAChD;KACF;AACH,CAAC;AAfD,4CAeC;AAED;;;;;GAKG;AACH,SAAsB,eAAe,CAAC,MAAoB;;QACxD,MAAM,OAAO,CAAC,OAAO,EAAE,CAAA;QACvB,gBAAgB,CAAC,MAAM,CAAC,CAAA;IAC1B,CAAC;CAAA;AAHD,0CAGC"}
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package/esm/bbi.d.ts
CHANGED
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@@ -1,6 +1,6 @@
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import { GenericFilehandle } from 'generic-filehandle';
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import { Observable } from 'rxjs';
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import { BlockView } from './
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import { BlockView } from './block-view';
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export interface Feature {
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start: number;
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end: number;
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@@ -51,8 +51,8 @@ export declare abstract class BBI {
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protected bbi: GenericFilehandle;
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private headerP?;
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protected renameRefSeqs: (a: string) => string;
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getHeader(opts?: RequestOptions
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constructor(
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getHeader(opts?: RequestOptions): Promise<Header>;
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constructor(args: {
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filehandle?: GenericFilehandle;
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path?: string;
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url?: string;
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@@ -62,8 +62,8 @@ export declare abstract class BBI {
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private _getMainHeader;
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private _isBigEndian;
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private _readChromTree;
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protected getUnzoomedView(opts
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protected abstract getView(scale: number, opts
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protected getUnzoomedView(opts?: RequestOptions): Promise<BlockView>;
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protected abstract getView(scale: number, opts?: RequestOptions): Promise<BlockView>;
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/**
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* Gets features from a BigWig file
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*
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package/esm/bbi.js
CHANGED
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@@ -3,7 +3,7 @@ import { Parser } from 'binary-parser';
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import { LocalFile, RemoteFile } from 'generic-filehandle';
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import { firstValueFrom, Observable } from 'rxjs';
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import { toArray } from 'rxjs/operators';
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import { BlockView } from './
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import { BlockView } from './block-view';
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const BIG_WIG_MAGIC = -2003829722;
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const BIG_BED_MAGIC = -2021002517;
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function toString(arr) {
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@@ -71,10 +71,9 @@ export class BBI {
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* @param abortSignal - abort the operation, can be null
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* @return a Header object
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*/
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getHeader(opts
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const options = 'aborted' in opts ? { signal: opts } : opts;
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getHeader(opts) {
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if (!this.headerP) {
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this.headerP = this._getHeader(
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this.headerP = this._getHeader(opts).catch(e => {
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this.headerP = undefined;
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throw e;
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});
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@@ -87,8 +86,8 @@ export class BBI {
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* @param url - a URL string
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* @param renameRefSeqs - an optional method to rename the internal reference sequences using a mapping function
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*/
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constructor(
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const { filehandle, renameRefSeqs = s => s, path, url } =
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constructor(args) {
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const { filehandle, renameRefSeqs = s => s, path, url } = args;
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this.renameRefSeqs = renameRefSeqs;
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if (filehandle) {
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this.bbi = filehandle;
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@@ -222,31 +221,25 @@ export class BBI {
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* @param end - The end of a region
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* @param opts - An object containing basesPerSpan (e.g. pixels per basepair) or scale used to infer the zoomLevel to use
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*/
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async getFeatureStream(refName, start, end, opts
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scale: 1,
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}) {
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async getFeatureStream(refName, start, end, opts) {
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await this.getHeader(opts);
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const chrName = this.renameRefSeqs(refName);
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let view;
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-
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const { basesPerSpan, scale } = opts || {};
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if (basesPerSpan) {
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view = await this.getView(1 / basesPerSpan, opts);
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}
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else if (
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view = await this.getView(
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else if (scale) {
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view = await this.getView(scale, opts);
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}
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else {
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view = await this.getView(1, opts);
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}
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throw new Error('unable to get block view for data');
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}
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return new Observable((observer) => {
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return new Observable(observer => {
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view.readWigData(chrName, start, end, observer, opts);
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});
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}
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async getFeatures(refName, start, end, opts
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scale: 1,
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}) {
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async getFeatures(refName, start, end, opts) {
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const ob = await this.getFeatureStream(refName, start, end, opts);
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const ret = await firstValueFrom(ob.pipe(toArray()));
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return ret.flat();
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package/esm/bbi.js.map
CHANGED
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{"version":3,"file":"bbi.js","sourceRoot":"","sources":["../src/bbi.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,MAAM,EAAE,MAAM,QAAQ,CAAA;AAC/B,OAAO,EAAE,MAAM,EAAE,MAAM,eAAe,CAAA;AACtC,OAAO,EAAE,SAAS,EAAE,UAAU,EAAqB,MAAM,oBAAoB,CAAA;AAC7E,OAAO,EAAE,cAAc,EAAE,UAAU,
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|
+
{"version":3,"file":"bbi.js","sourceRoot":"","sources":["../src/bbi.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,MAAM,EAAE,MAAM,QAAQ,CAAA;AAC/B,OAAO,EAAE,MAAM,EAAE,MAAM,eAAe,CAAA;AACtC,OAAO,EAAE,SAAS,EAAE,UAAU,EAAqB,MAAM,oBAAoB,CAAA;AAC7E,OAAO,EAAE,cAAc,EAAE,UAAU,EAAE,MAAM,MAAM,CAAA;AACjD,OAAO,EAAE,OAAO,EAAE,MAAM,gBAAgB,CAAA;AACxC,OAAO,EAAE,SAAS,EAAE,MAAM,cAAc,CAAA;AAExC,MAAM,aAAa,GAAG,CAAC,UAAU,CAAA;AACjC,MAAM,aAAa,GAAG,CAAC,UAAU,CAAA;AAEjC,SAAS,QAAQ,CAAC,GAAe;IAC/B,OAAO,IAAI,WAAW,EAAE,CAAC,MAAM,CAAC,GAAG,CAAC,CAAA;AACtC,CAAC;AAyCD;;;;GAIG;AACH,SAAS,UAAU,CAAC,IAAa;IAC/B,MAAM,EAAE,GAAG,IAAI,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,QAAQ,CAAA;IAClC,MAAM,YAAY,GAAG,IAAI,MAAM,EAAE;SAC9B,SAAS,CAAC,EAAE,CAAC;SACb,KAAK,CAAC,OAAO,CAAC;SACd,MAAM,CAAC,SAAS,CAAC;SACjB,MAAM,CAAC,eAAe,CAAC;SACvB,MAAM,CAAC,iBAAiB,CAAC;SACzB,MAAM,CAAC,oBAAoB,CAAC;SAC5B,MAAM,CAAC,qBAAqB,CAAC;SAC7B,MAAM,CAAC,YAAY,CAAC;SACpB,MAAM,CAAC,mBAAmB,CAAC;SAC3B,MAAM,CAAC,UAAU,CAAC,CAAC,iCAAiC;SACpD,MAAM,CAAC,oBAAoB,CAAC;SAC5B,MAAM,CAAC,mBAAmB,CAAC;SAC3B,MAAM,CAAC,iBAAiB,CAAC,CAAC,oCAAoC;SAC9D,KAAK,CAAC,YAAY,EAAE;QACnB,MAAM,EAAE,eAAe;QACvB,IAAI,EAAE,IAAI,MAAM,EAAE;aACf,SAAS,CAAC,EAAE,CAAC;aACb,MAAM,CAAC,gBAAgB,CAAC;aACxB,MAAM,CAAC,UAAU,CAAC;aAClB,MAAM,CAAC,YAAY,CAAC;aACpB,MAAM,CAAC,aAAa,CAAC;KACzB,CAAC,CAAA;IAEJ,MAAM,kBAAkB,GAAG,IAAI,MAAM,EAAE;SACpC,SAAS,CAAC,EAAE,CAAC;SACb,MAAM,CAAC,cAAc,CAAC;SACtB,QAAQ,CAAC,UAAU,CAAC;SACpB,QAAQ,CAAC,UAAU,CAAC;SACpB,QAAQ,CAAC,UAAU,CAAC;SACpB,QAAQ,CAAC,iBAAiB,CAAC,CAAA;IAE9B,MAAM,eAAe,GAAG,IAAI,MAAM,EAAE;SACjC,SAAS,CAAC,EAAE,CAAC;SACb,MAAM,CAAC,OAAO,CAAC;SACf,MAAM,CAAC,WAAW,CAAC;SACnB,MAAM,CAAC,SAAS,CAAC;SACjB,MAAM,CAAC,SAAS,CAAC;SACjB,MAAM,CAAC,WAAW,CAAC,CAAA;IAEtB,MAAM,UAAU,GAAG,IAAI,MAAM,EAAE;SAC5B,SAAS,CAAC,EAAE,CAAC;SACb,KAAK,CAAC,YAAY,CAAC;SACnB,IAAI,CAAC,CAAC,CAAC;SACP,MAAM,CAAC,KAAK,CAAC;SACb,UAAU,CAAC,QAAQ,CAAC,CAAA;IAEvB,OAAO;QACL,eAAe;QACf,kBAAkB;QAClB,YAAY;QACZ,UAAU;KACX,CAAA;AACH,CAAC;AAQD,MAAM,OAAgB,GAAG;IAOvB;;;OAGG;IACI,SAAS,CAAC,IAAqB;QACpC,IAAI,CAAC,IAAI,CAAC,OAAO,EAAE;YACjB,IAAI,CAAC,OAAO,GAAG,IAAI,CAAC,UAAU,CAAC,IAAI,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE;gBAC7C,IAAI,CAAC,OAAO,GAAG,SAAS,CAAA;gBACxB,MAAM,CAAC,CAAA;YACT,CAAC,CAAC,CAAA;SACH;QACD,OAAO,IAAI,CAAC,OAAO,CAAA;IACrB,CAAC;IAED;;;;;OAKG;IACH,YAAmB,IAKlB;QACC,MAAM,EAAE,UAAU,EAAE,aAAa,GAAG,CAAC,CAAC,EAAE,CAAC,CAAC,EAAE,IAAI,EAAE,GAAG,EAAE,GAAG,IAAI,CAAA;QAC9D,IAAI,CAAC,aAAa,GAAG,aAAa,CAAA;QAClC,IAAI,UAAU,EAAE;YACd,IAAI,CAAC,GAAG,GAAG,UAAU,CAAA;SACtB;aAAM,IAAI,GAAG,EAAE;YACd,IAAI,CAAC,GAAG,GAAG,IAAI,UAAU,CAAC,GAAG,CAAC,CAAA;SAC/B;aAAM,IAAI,IAAI,EAAE;YACf,IAAI,CAAC,GAAG,GAAG,IAAI,SAAS,CAAC,IAAI,CAAC,CAAA;SAC/B;aAAM;YACL,MAAM,IAAI,KAAK,CAAC,eAAe,CAAC,CAAA;SACjC;IACH,CAAC;IAEO,KAAK,CAAC,UAAU,CAAC,IAAqB;QAC5C,MAAM,MAAM,GAAG,MAAM,IAAI,CAAC,cAAc,CAAC,IAAI,CAAC,CAAA;QAC9C,MAAM,MAAM,GAAG,MAAM,IAAI,CAAC,cAAc,CAAC,MAAM,EAAE,IAAI,CAAC,CAAA;QACtD,OAAO,EAAE,GAAG,MAAM,EAAE,GAAG,MAAM,EAAE,CAAA;IACjC,CAAC;IAEO,KAAK,CAAC,cAAc,CAC1B,IAAqB,EACrB,WAAW,GAAG,IAAI;QAElB,MAAM,EAAE,MAAM,EAAE,GAAG,MAAM,IAAI,CAAC,GAAG,CAAC,IAAI,CACpC,MAAM,CAAC,KAAK,CAAC,WAAW,CAAC,EACzB,CAAC,EACD,WAAW,EACX,CAAC,EACD,IAAI,CACL,CAAA;QACD,MAAM,WAAW,GAAG,IAAI,CAAC,YAAY,CAAC,MAAM,CAAC,CAAA;QAC7C,MAAM,GAAG,GAAG,UAAU,CAAC,WAAW,CAAC,CAAA;QACnC,MAAM,MAAM,GAAG,GAAG,CAAC,YAAY,CAAC,KAAK,CAAC,MAAM,CAAC,CAAA;QAC7C,MAAM,EAAE,KAAK,EAAE,QAAQ,EAAE,kBAAkB,EAAE,GAAG,MAAM,CAAA;QACtD,MAAM,CAAC,QAAQ,GAAG,KAAK,KAAK,aAAa,CAAC,CAAC,CAAC,QAAQ,CAAC,CAAC,CAAC,QAAQ,CAAA;QAC/D,IAAI,QAAQ,GAAG,WAAW,IAAI,kBAAkB,GAAG,WAAW,EAAE;YAC9D,OAAO,IAAI,CAAC,cAAc,CAAC,IAAI,EAAE,WAAW,GAAG,CAAC,CAAC,CAAA;SAClD;QACD,IAAI,QAAQ,EAAE;YACZ,MAAM,GAAG,GAAG,MAAM,CAAC,MAAM,CAAC,QAAQ,CAAC,CAAA;YACnC,MAAM,CAAC,OAAO,GAAG,QAAQ,CAAC,MAAM,CAAC,QAAQ,CAAC,GAAG,EAAE,MAAM,CAAC,OAAO,CAAC,CAAC,EAAE,GAAG,CAAC,CAAC,CAAC,CAAA;SACxE;QACD,IAAI,MAAM,CAAC,kBAAkB,GAAG,WAAW,EAAE;YAC3C,OAAO,IAAI,CAAC,cAAc,CAAC,IAAI,EAAE,WAAW,GAAG,CAAC,CAAC,CAAA;SAClD;QACD,IAAI,MAAM,CAAC,kBAAkB,EAAE;YAC7B,MAAM,IAAI,GAAG,MAAM,CAAC,QAAQ,CAAC,MAAM,CAAC,MAAM,CAAC,kBAAkB,CAAC,CAAC,CAAA;YAC/D,MAAM,GAAG,GAAG,GAAG,CAAC,kBAAkB,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;YAC9C,MAAM,CAAC,YAAY,GAAG,EAAE,GAAG,GAAG,EAAE,YAAY,EAAE,MAAM,CAAC,GAAG,CAAC,YAAY,CAAC,EAAE,CAAA;SACzE;QACD,OAAO,EAAE,GAAG,MAAM,EAAE,WAAW,EAAE,CAAA;IACnC,CAAC;IAEO,YAAY,CAAC,MAAc;QACjC,IAAI,GAAG,GAAG,MAAM,CAAC,WAAW,CAAC,CAAC,CAAC,CAAA;QAC/B,IAAI,GAAG,KAAK,aAAa,IAAI,GAAG,KAAK,aAAa,EAAE;YAClD,OAAO,KAAK,CAAA;SACb;QACD,GAAG,GAAG,MAAM,CAAC,WAAW,CAAC,CAAC,CAAC,CAAA;QAC3B,IAAI,GAAG,KAAK,aAAa,IAAI,GAAG,KAAK,aAAa,EAAE;YAClD,OAAO,IAAI,CAAA;SACZ;QACD,MAAM,IAAI,KAAK,CAAC,0BAA0B,CAAC,CAAA;IAC7C,CAAC;IAED,qCAAqC;IAC7B,KAAK,CAAC,cAAc,CAC1B,MAAc,EACd,IAA+B;QAE/B,MAAM,IAAI,GAAG,MAAM,CAAC,WAAW,CAAA;QAC/B,MAAM,EAAE,GAAG,IAAI,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,QAAQ,CAAA;QAClC,MAAM,YAAY,GAEd,EAAE,CAAA;QACN,MAAM,UAAU,GAA8B,EAAE,CAAA;QAEhD,IAAI,kBAAkB,GAAG,MAAM,CAAC,MAAM,CAAC,kBAAkB,CAAC,CAAA;QAC1D,MAAM,eAAe,GAAG,MAAM,CAAC,MAAM,CAAC,eAAe,CAAC,CAAA;QACtD,OAAO,kBAAkB,GAAG,CAAC,KAAK,CAAC,EAAE;YACnC,kBAAkB,IAAI,CAAC,CAAA;SACxB;QACD,MAAM,GAAG,GAAG,kBAAkB,GAAG,eAAe,CAAA;QAChD,MAAM,EAAE,MAAM,EAAE,GAAG,MAAM,IAAI,CAAC,GAAG,CAAC,IAAI,CACpC,MAAM,CAAC,KAAK,CAAC,GAAG,CAAC,EACjB,CAAC,EACD,GAAG,EACH,MAAM,CAAC,eAAe,CAAC,EACvB,IAAI,CACL,CAAA;QAED,MAAM,CAAC,GAAG,UAAU,CAAC,IAAI,CAAC,CAAA;QAC1B,MAAM,EAAE,OAAO,EAAE,GAAG,CAAC,CAAC,eAAe,CAAC,KAAK,CAAC,MAAM,CAAC,CAAA;QACnD,MAAM,cAAc,GAAG,IAAI,MAAM,EAAE;aAChC,SAAS,CAAC,EAAE,CAAC;aACb,MAAM,CAAC,KAAK,EAAE,EAAE,SAAS,EAAE,IAAI,EAAE,MAAM,EAAE,OAAO,EAAE,CAAC;aACnD,MAAM,CAAC,OAAO,CAAC;aACf,MAAM,CAAC,SAAS,CAAC;aACjB,UAAU,CAAC,QAAQ,CAAC,CAAA;QACvB,MAAM,iBAAiB,GAAG,IAAI,MAAM,EAAE;aACnC,SAAS,CAAC,EAAE,CAAC;aACb,IAAI,CAAC,OAAO,CAAC;aACb,MAAM,CAAC,aAAa,CAAC;aACrB,UAAU,CAAC,QAAQ,CAAC,CAAA;QACvB,MAAM,cAAc,GAAG,EAAE,CAAA;QACzB,MAAM,WAAW,GAAG,KAAK,EAAE,aAAqB,EAAE,EAAE;YAClD,IAAI,MAAM,GAAG,aAAa,CAAA;YAC1B,IAAI,MAAM,IAAI,MAAM,CAAC,MAAM,EAAE;gBAC3B,MAAM,IAAI,KAAK,CAAC,8BAA8B,CAAC,CAAA;aAChD;YACD,MAAM,GAAG,GAAG,CAAC,CAAC,UAAU,CAAC,KAAK,CAAC,MAAM,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAC,CAAA;YACvD,MAAM,EAAE,UAAU,EAAE,GAAG,EAAE,GAAG,GAAG,CAAA;YAC/B,MAAM,IAAI,GAAG,CAAC,MAAM,CAAA;YACpB,IAAI,UAAU,EAAE;gBACd,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,GAAG,EAAE,CAAC,IAAI,CAAC,EAAE;oBAC/B,MAAM,OAAO,GAAG,cAAc,CAAC,KAAK,CAAC,MAAM,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAC,CAAA;oBAC7D,MAAM,IAAI,OAAO,CAAC,MAAM,CAAA;oBACxB,MAAM,EAAE,GAAG,EAAE,KAAK,EAAE,OAAO,EAAE,GAAG,OAAO,CAAA;oBACvC,MAAM,MAAM,GAAG,EAAE,IAAI,EAAE,GAAG,EAAE,EAAE,EAAE,KAAK,EAAE,MAAM,EAAE,OAAO,EAAE,CAAA;oBACxD,UAAU,CAAC,IAAI,CAAC,aAAa,CAAC,GAAG,CAAC,CAAC,GAAG,KAAK,CAAA;oBAC3C,YAAY,CAAC,KAAK,CAAC,GAAG,MAAM,CAAA;iBAC7B;aACF;iBAAM;gBACL,mBAAmB;gBACnB,MAAM,SAAS,GAAG,EAAE,CAAA;gBACpB,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,GAAG,EAAE,CAAC,IAAI,CAAC,EAAE;oBAC/B,MAAM,UAAU,GAAG,iBAAiB,CAAC,KAAK,CAAC,MAAM,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAC,CAAA;oBACnE,MAAM,EAAE,WAAW,EAAE,GAAG,UAAU,CAAA;oBAClC,MAAM,IAAI,UAAU,CAAC,MAAM,CAAA;oBAC3B,SAAS,CAAC,IAAI,CACZ,WAAW,CAAC,MAAM,CAAC,WAAW,CAAC,GAAG,MAAM,CAAC,eAAe,CAAC,CAAC,CAC3D,CAAA;iBACF;gBACD,MAAM,OAAO,CAAC,GAAG,CAAC,SAAS,CAAC,CAAA;aAC7B;QACH,CAAC,CAAA;QACD,MAAM,WAAW,CAAC,cAAc,CAAC,CAAA;QACjC,OAAO;YACL,UAAU;YACV,YAAY;SACb,CAAA;IACH,CAAC;IAED;;;OAGG;IACO,KAAK,CAAC,eAAe,CAAC,IAAqB;QACnD,MAAM,EACJ,mBAAmB,EACnB,UAAU,EACV,iBAAiB,EACjB,WAAW,EACX,QAAQ,GACT,GAAG,MAAM,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,CAAA;QAC9B,OAAO,IAAI,SAAS,CAClB,IAAI,CAAC,GAAG,EACR,UAAU,EACV,mBAAmB,EACnB,WAAW,EACX,iBAAiB,GAAG,CAAC,EACrB,QAAQ,CACT,CAAA;IACH,CAAC;IAUD;;;;;;;OAOG;IACI,KAAK,CAAC,gBAAgB,CAC3B,OAAe,EACf,KAAa,EACb,GAAW,EACX,IAAiE;QAEjE,MAAM,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,CAAA;QAC1B,MAAM,OAAO,GAAG,IAAI,CAAC,aAAa,CAAC,OAAO,CAAC,CAAA;QAC3C,IAAI,IAAe,CAAA;QACnB,MAAM,EAAE,YAAY,EAAE,KAAK,EAAE,GAAG,IAAI,IAAI,EAAE,CAAA;QAE1C,IAAI,YAAY,EAAE;YAChB,IAAI,GAAG,MAAM,IAAI,CAAC,OAAO,CAAC,CAAC,GAAG,YAAY,EAAE,IAAI,CAAC,CAAA;SAClD;aAAM,IAAI,KAAK,EAAE;YAChB,IAAI,GAAG,MAAM,IAAI,CAAC,OAAO,CAAC,KAAK,EAAE,IAAI,CAAC,CAAA;SACvC;aAAM;YACL,IAAI,GAAG,MAAM,IAAI,CAAC,OAAO,CAAC,CAAC,EAAE,IAAI,CAAC,CAAA;SACnC;QAED,OAAO,IAAI,UAAU,CAAY,QAAQ,CAAC,EAAE;YAC1C,IAAI,CAAC,WAAW,CAAC,OAAO,EAAE,KAAK,EAAE,GAAG,EAAE,QAAQ,EAAE,IAAI,CAAC,CAAA;QACvD,CAAC,CAAC,CAAA;IACJ,CAAC;IAEM,KAAK,CAAC,WAAW,CACtB,OAAe,EACf,KAAa,EACb,GAAW,EACX,IAAiE;QAEjE,MAAM,EAAE,GAAG,MAAM,IAAI,CAAC,gBAAgB,CAAC,OAAO,EAAE,KAAK,EAAE,GAAG,EAAE,IAAI,CAAC,CAAA;QAEjE,MAAM,GAAG,GAAG,MAAM,cAAc,CAAC,EAAE,CAAC,IAAI,CAAC,OAAO,EAAE,CAAC,CAAC,CAAA;QACpD,OAAO,GAAG,CAAC,IAAI,EAAE,CAAA;IACnB,CAAC;CACF"}
|
package/esm/bigbed.d.ts
CHANGED
|
@@ -1,11 +1,18 @@
|
|
|
1
|
+
import AbortablePromiseCache from 'abortable-promise-cache';
|
|
1
2
|
import { BBI, Feature, RequestOptions } from './bbi';
|
|
2
|
-
|
|
3
|
+
interface Index {
|
|
4
|
+
type: number;
|
|
5
|
+
fieldcount: number;
|
|
6
|
+
offset: number;
|
|
7
|
+
field: number;
|
|
8
|
+
}
|
|
3
9
|
export declare function filterUndef<T>(ts: (T | undefined)[]): T[];
|
|
4
10
|
export declare class BigBed extends BBI {
|
|
5
|
-
readIndicesCache:
|
|
6
|
-
readIndices(opts?:
|
|
7
|
-
protected getView(_scale: number, opts
|
|
11
|
+
readIndicesCache: AbortablePromiseCache<RequestOptions, Index[]>;
|
|
12
|
+
readIndices(opts?: RequestOptions): Promise<Index[]>;
|
|
13
|
+
protected getView(_scale: number, opts?: RequestOptions): Promise<import("./block-view").BlockView>;
|
|
8
14
|
private _readIndices;
|
|
9
15
|
private searchExtraIndexBlocks;
|
|
10
16
|
searchExtraIndex(name: string, opts?: RequestOptions): Promise<Feature[]>;
|
|
11
17
|
}
|
|
18
|
+
export {};
|
package/esm/bigbed.js
CHANGED
|
@@ -13,20 +13,15 @@ export class BigBed extends BBI {
|
|
|
13
13
|
super(...arguments);
|
|
14
14
|
this.readIndicesCache = new AbortablePromiseCache({
|
|
15
15
|
cache: new QuickLRU({ maxSize: 1 }),
|
|
16
|
-
fill:
|
|
17
|
-
return this._readIndices({ ...args, signal });
|
|
18
|
-
},
|
|
16
|
+
fill: (args, signal) => this._readIndices({ ...args, signal }),
|
|
19
17
|
});
|
|
20
18
|
}
|
|
21
19
|
readIndices(opts = {}) {
|
|
22
|
-
const
|
|
23
|
-
return this.readIndicesCache.get(JSON.stringify(
|
|
20
|
+
const { signal, ...rest } = opts;
|
|
21
|
+
return this.readIndicesCache.get(JSON.stringify(rest), opts, signal);
|
|
24
22
|
}
|
|
25
23
|
/*
|
|
26
24
|
* retrieve unzoomed view for any scale
|
|
27
|
-
* @param scale - unused
|
|
28
|
-
* @param abortSignal - an optional AbortSignal to kill operation
|
|
29
|
-
* @return promise for a BlockView
|
|
30
25
|
*/
|
|
31
26
|
async getView(_scale, opts) {
|
|
32
27
|
return this.getUnzoomedView(opts);
|
|
@@ -78,7 +73,7 @@ export class BigBed extends BBI {
|
|
|
78
73
|
async searchExtraIndexBlocks(name, opts = {}) {
|
|
79
74
|
const { isBigEndian } = await this.getHeader(opts);
|
|
80
75
|
const indices = await this.readIndices(opts);
|
|
81
|
-
if (
|
|
76
|
+
if (indices.length === 0) {
|
|
82
77
|
return [];
|
|
83
78
|
}
|
|
84
79
|
const locs = indices.map(async (index) => {
|
|
@@ -158,7 +153,7 @@ export class BigBed extends BBI {
|
|
|
158
153
|
*/
|
|
159
154
|
async searchExtraIndex(name, opts = {}) {
|
|
160
155
|
const blocks = await this.searchExtraIndexBlocks(name, opts);
|
|
161
|
-
if (
|
|
156
|
+
if (blocks.length === 0) {
|
|
162
157
|
return [];
|
|
163
158
|
}
|
|
164
159
|
const view = await this.getUnzoomedView(opts);
|
|
@@ -166,8 +161,8 @@ export class BigBed extends BBI {
|
|
|
166
161
|
return new Observable(observer => {
|
|
167
162
|
view.readFeatures(observer, [block], opts);
|
|
168
163
|
}).pipe(reduce((acc, curr) => acc.concat(curr)), map(x => {
|
|
169
|
-
for (
|
|
170
|
-
|
|
164
|
+
for (const element of x) {
|
|
165
|
+
element.field = block.field;
|
|
171
166
|
}
|
|
172
167
|
return x;
|
|
173
168
|
}));
|
package/esm/bigbed.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"bigbed.js","sourceRoot":"","sources":["../src/bigbed.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,MAAM,EAAE,MAAM,QAAQ,CAAA;AAC/B,OAAO,EAAE,MAAM,EAAE,MAAM,eAAe,CAAA;AACtC,OAAO,EAAE,UAAU,EAAE,KAAK,EAAE,cAAc,EAAE,MAAM,MAAM,CAAA;AACxD,OAAO,EAAE,GAAG,EAAE,MAAM,EAAE,MAAM,gBAAgB,CAAA;AAC5C,OAAO,qBAAqB,MAAM,yBAAyB,CAAA;AAC3D,OAAO,QAAQ,MAAM,WAAW,CAAA;AAEhC,OAAO,EAAE,GAAG,EAA2B,MAAM,OAAO,CAAA;
|
|
1
|
+
{"version":3,"file":"bigbed.js","sourceRoot":"","sources":["../src/bigbed.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,MAAM,EAAE,MAAM,QAAQ,CAAA;AAC/B,OAAO,EAAE,MAAM,EAAE,MAAM,eAAe,CAAA;AACtC,OAAO,EAAE,UAAU,EAAE,KAAK,EAAE,cAAc,EAAE,MAAM,MAAM,CAAA;AACxD,OAAO,EAAE,GAAG,EAAE,MAAM,EAAE,MAAM,gBAAgB,CAAA;AAC5C,OAAO,qBAAqB,MAAM,yBAAyB,CAAA;AAC3D,OAAO,QAAQ,MAAM,WAAW,CAAA;AAEhC,OAAO,EAAE,GAAG,EAA2B,MAAM,OAAO,CAAA;AAgBpD,MAAM,UAAU,WAAW,CAAI,EAAqB;IAClD,OAAO,EAAE,CAAC,MAAM,CAAC,CAAC,CAAgB,EAAU,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;AACrD,CAAC;AAED,MAAM,OAAO,MAAO,SAAQ,GAAG;IAA/B;;QACS,qBAAgB,GAAG,IAAI,qBAAqB,CAA0B;YAC3E,KAAK,EAAE,IAAI,QAAQ,CAAC,EAAE,OAAO,EAAE,CAAC,EAAE,CAAC;YACnC,IAAI,EAAE,CAAC,IAAoB,EAAE,MAAoB,EAAE,EAAE,CACnD,IAAI,CAAC,YAAY,CAAC,EAAE,GAAG,IAAI,EAAE,MAAM,EAAE,CAAC;SACzC,CAAC,CAAA;IAqMJ,CAAC;IAnMQ,WAAW,CAAC,OAAuB,EAAE;QAC1C,MAAM,EAAE,MAAM,EAAE,GAAG,IAAI,EAAE,GAAG,IAAI,CAAA;QAChC,OAAO,IAAI,CAAC,gBAAgB,CAAC,GAAG,CAAC,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,EAAE,IAAI,EAAE,MAAM,CAAC,CAAA;IACtE,CAAC;IAED;;OAEG;IACO,KAAK,CAAC,OAAO,CAAC,MAAc,EAAE,IAAqB;QAC3D,OAAO,IAAI,CAAC,eAAe,CAAC,IAAI,CAAC,CAAA;IACnC,CAAC;IAED;;;;OAIG;IACK,KAAK,CAAC,YAAY,CAAC,IAAoB;QAC7C,MAAM,EAAE,eAAe,EAAE,WAAW,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,CAAA;QACnE,MAAM,EAAE,MAAM,EAAE,IAAI,EAAE,GAAG,MAAM,IAAI,CAAC,GAAG,CAAC,IAAI,CAC1C,MAAM,CAAC,KAAK,CAAC,EAAE,CAAC,EAChB,CAAC,EACD,EAAE,EACF,MAAM,CAAC,eAAe,CAAC,CACxB,CAAA;QACD,MAAM,EAAE,GAAG,WAAW,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,QAAQ,CAAA;QACzC,MAAM,GAAG,GAAG,IAAI,MAAM,EAAE;aACrB,SAAS,CAAC,EAAE,CAAC;aACb,MAAM,CAAC,MAAM,CAAC;aACd,MAAM,CAAC,OAAO,CAAC;aACf,MAAM,CAAC,QAAQ,CAAC;aAChB,KAAK,CAAC,IAAI,CAAC,CAAA;QAEd,MAAM,EAAE,KAAK,EAAE,MAAM,EAAE,GAAG,GAAG,CAAA;QAE7B,wCAAwC;QACxC,IAAI,KAAK,KAAK,CAAC,EAAE;YACf,OAAO,EAAE,CAAA;SACV;QAED,MAAM,QAAQ,GAAG,EAAE,CAAA;QACnB,MAAM,GAAG,GAAG,QAAQ,GAAG,KAAK,CAAA;QAC5B,MAAM,EAAE,MAAM,EAAE,GAAG,MAAM,IAAI,CAAC,GAAG,CAAC,IAAI,CACpC,MAAM,CAAC,KAAK,CAAC,GAAG,CAAC,EACjB,CAAC,EACD,GAAG,EACH,MAAM,CAAC,MAAM,CAAC,CACf,CAAA;QACD,MAAM,SAAS,GAAG,IAAI,MAAM,EAAE;aAC3B,SAAS,CAAC,EAAE,CAAC;aACb,KAAK,CAAC,MAAM,CAAC;aACb,KAAK,CAAC,YAAY,CAAC;aACnB,MAAM,CAAC,QAAQ,CAAC;aAChB,IAAI,CAAC,CAAC,CAAC;aACP,KAAK,CAAC,OAAO,CAAC,CAAA;QACjB,MAAM,OAAO,GAAG,EAAa,CAAA;QAE7B,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,KAAK,EAAE,CAAC,IAAI,CAAC,EAAE;YACjC,OAAO,CAAC,IAAI,CAAC,SAAS,CAAC,KAAK,CAAC,MAAM,CAAC,QAAQ,CAAC,CAAC,GAAG,QAAQ,CAAC,CAAC,CAAC,CAAA;SAC7D;QACD,OAAO,OAAO,CAAA;IAChB,CAAC;IAED;;;;;;;OAOG;IACK,KAAK,CAAC,sBAAsB,CAClC,IAAY,EACZ,OAAuB,EAAE;QAEzB,MAAM,EAAE,WAAW,EAAE,GAAG,MAAM,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,CAAA;QAClD,MAAM,OAAO,GAAG,MAAM,IAAI,CAAC,WAAW,CAAC,IAAI,CAAC,CAAA;QAC5C,IAAI,OAAO,CAAC,MAAM,KAAK,CAAC,EAAE;YACxB,OAAO,EAAE,CAAA;SACV;QACD,MAAM,IAAI,GAAG,OAAO,CAAC,GAAG,CAAC,KAAK,EAAE,KAAU,EAA4B,EAAE;YACtE,MAAM,EAAE,MAAM,EAAE,KAAK,EAAE,GAAG,KAAK,CAAA;YAC/B,MAAM,EAAE,MAAM,EAAE,IAAI,EAAE,GAAG,MAAM,IAAI,CAAC,GAAG,CAAC,IAAI,CAC1C,MAAM,CAAC,KAAK,CAAC,EAAE,CAAC,EAChB,CAAC,EACD,EAAE,EACF,MAAM,CAAC,MAAM,CAAC,EACd,IAAI,CACL,CAAA;YACD,MAAM,EAAE,GAAG,WAAW,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,QAAQ,CAAA;YACzC,MAAM,CAAC,GAAG,IAAI,MAAM,EAAE;iBACnB,SAAS,CAAC,EAAE,CAAC;iBACb,KAAK,CAAC,OAAO,CAAC;iBACd,KAAK,CAAC,WAAW,CAAC;iBAClB,KAAK,CAAC,SAAS,CAAC;iBAChB,KAAK,CAAC,SAAS,CAAC;iBAChB,MAAM,CAAC,WAAW,CAAC,CAAA;YAEtB,MAAM,EAAE,SAAS,EAAE,OAAO,EAAE,OAAO,EAAE,GAAG,CAAC,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;YACrD,2CAA2C;YAC3C,MAAM,GAAG,GAAG,IAAI,MAAM,EAAE;iBACrB,SAAS,CAAC,EAAE,CAAC;iBACb,IAAI,CAAC,UAAU,CAAC;iBAChB,IAAI,CAAC,CAAC,CAAC;iBACP,KAAK,CAAC,KAAK,CAAC;iBACZ,MAAM,CAAC;gBACN,GAAG,EAAE,UAAU;gBACf,OAAO,EAAE;oBACP,CAAC,EAAE,IAAI,MAAM,EAAE,CAAC,KAAK,CAAC,UAAU,EAAE;wBAChC,MAAM,EAAE,KAAK;wBACb,IAAI,EAAE,IAAI,MAAM,EAAE;6BACf,SAAS,CAAC,EAAE,CAAC;6BACb,MAAM,CAAC,KAAK,EAAE,EAAE,MAAM,EAAE,OAAO,EAAE,SAAS,EAAE,IAAI,EAAE,CAAC;6BACnD,MAAM,CAAC,QAAQ,CAAC;qBACpB,CAAC;oBACF,CAAC,EAAE,IAAI,MAAM,EAAE,CAAC,KAAK,CAAC,MAAM,EAAE;wBAC5B,MAAM,EAAE,KAAK;wBACb,IAAI,EAAE,IAAI,MAAM,EAAE;6BACf,SAAS,CAAC,EAAE,CAAC;6BACb,MAAM,CAAC,KAAK,EAAE,EAAE,MAAM,EAAE,OAAO,EAAE,SAAS,EAAE,IAAI,EAAE,CAAC;6BACnD,MAAM,CAAC,QAAQ,CAAC;6BAChB,MAAM,CAAC,QAAQ,CAAC;6BAChB,MAAM,CAAC,UAAU,CAAC;qBACtB,CAAC;iBACH;aACF,CAAC,CAAA;YAEJ,MAAM,WAAW,GAAG,KAAK,EACvB,UAAkB,EACQ,EAAE;gBAC5B,MAAM,GAAG,GAAG,MAAM,CAAC,UAAU,CAAC,CAAA;gBAC9B,MAAM,GAAG,GAAG,CAAC,GAAG,SAAS,GAAG,CAAC,OAAO,GAAG,OAAO,CAAC,CAAA;gBAC/C,MAAM,EAAE,MAAM,EAAE,GAAG,MAAM,IAAI,CAAC,GAAG,CAAC,IAAI,CACpC,MAAM,CAAC,KAAK,CAAC,GAAG,CAAC,EACjB,CAAC,EACD,GAAG,EACH,GAAG,EACH,IAAI,CACL,CAAA;gBACD,MAAM,IAAI,GAAG,GAAG,CAAC,KAAK,CAAC,MAAM,CAAC,CAAA;gBAC9B,IAAI,IAAI,CAAC,QAAQ,EAAE;oBACjB,IAAI,UAAU,CAAA;oBACd,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,IAAI,CAAC,QAAQ,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE;wBAChD,MAAM,EAAE,GAAG,EAAE,GAAG,IAAI,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAA;wBAChC,IAAI,IAAI,CAAC,aAAa,CAAC,GAAG,CAAC,GAAG,CAAC,IAAI,UAAU,EAAE;4BAC7C,OAAO,WAAW,CAAC,UAAU,CAAC,CAAA;yBAC/B;wBACD,UAAU,GAAG,IAAI,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAC,MAAM,CAAA;qBACrC;oBACD,OAAO,WAAW,CAAC,UAAU,CAAC,CAAA;iBAC/B;gBACD,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,IAAI,CAAC,IAAI,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE;oBAC5C,IAAI,IAAI,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,GAAG,KAAK,IAAI,EAAE;wBAC7B,OAAO,EAAE,GAAG,IAAI,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,KAAK,EAAE,CAAA;qBAClC;iBACF;gBAED,OAAO,SAAS,CAAA;YAClB,CAAC,CAAA;YACD,MAAM,cAAc,GAAG,EAAE,CAAA;YACzB,OAAO,WAAW,CAAC,MAAM,CAAC,MAAM,CAAC,GAAG,cAAc,CAAC,CAAA;QACrD,CAAC,CAAC,CAAA;QACF,OAAO,WAAW,CAAC,MAAM,OAAO,CAAC,GAAG,CAAC,IAAI,CAAC,CAAC,CAAA;IAC7C,CAAC;IAED;;;;;;;OAOG;IACI,KAAK,CAAC,gBAAgB,CAAC,IAAY,EAAE,OAAuB,EAAE;QACnE,MAAM,MAAM,GAAG,MAAM,IAAI,CAAC,sBAAsB,CAAC,IAAI,EAAE,IAAI,CAAC,CAAA;QAC5D,IAAI,MAAM,CAAC,MAAM,KAAK,CAAC,EAAE;YACvB,OAAO,EAAE,CAAA;SACV;QACD,MAAM,IAAI,GAAG,MAAM,IAAI,CAAC,eAAe,CAAC,IAAI,CAAC,CAAA;QAC7C,MAAM,GAAG,GAAG,MAAM,CAAC,GAAG,CAAC,KAAK,CAAC,EAAE;YAC7B,OAAO,IAAI,UAAU,CAAY,QAAQ,CAAC,EAAE;gBAC1C,IAAI,CAAC,YAAY,CAAC,QAAQ,EAAE,CAAC,KAAK,CAAC,EAAE,IAAI,CAAC,CAAA;YAC5C,CAAC,CAAC,CAAC,IAAI,CACL,MAAM,CAAC,CAAC,GAAG,EAAE,IAAI,EAAE,EAAE,CAAC,GAAG,CAAC,MAAM,CAAC,IAAI,CAAC,CAAC,EACvC,GAAG,CAAC,CAAC,CAAC,EAAE;gBACN,KAAK,MAAM,OAAO,IAAI,CAAC,EAAE;oBACvB,OAAO,CAAC,KAAK,GAAG,KAAK,CAAC,KAAK,CAAA;iBAC5B;gBACD,OAAO,CAAC,CAAA;YACV,CAAC,CAAC,CACH,CAAA;QACH,CAAC,CAAC,CAAA;QACF,MAAM,GAAG,GAAG,MAAM,cAAc,CAAC,KAAK,CAAC,GAAG,GAAG,CAAC,CAAC,CAAA;QAC/C,OAAO,GAAG,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,WAAC,OAAA,CAAA,MAAA,CAAC,CAAC,IAAI,0CAAE,KAAK,CAAC,IAAI,EAAE,CAAC,CAAC,CAAC,KAAK,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,MAAK,IAAI,CAAA,EAAA,CAAC,CAAA;IAC1E,CAAC;CACF"}
|
package/esm/bigwig.d.ts
CHANGED
package/esm/bigwig.js
CHANGED
package/esm/bigwig.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"bigwig.js","sourceRoot":"","sources":["../src/bigwig.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,SAAS,EAAE,MAAM,
|
|
1
|
+
{"version":3,"file":"bigwig.js","sourceRoot":"","sources":["../src/bigwig.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,SAAS,EAAE,MAAM,cAAc,CAAA;AACxC,OAAO,EAAE,GAAG,EAAkB,MAAM,OAAO,CAAA;AAE3C,MAAM,OAAO,MAAO,SAAQ,GAAG;IAC7B;;;;;OAKG;IACO,KAAK,CAAC,OAAO,CAAC,KAAa,EAAE,IAAoB;QACzD,MAAM,EAAE,UAAU,EAAE,UAAU,EAAE,QAAQ,EAAE,WAAW,EAAE,iBAAiB,EAAE,GACxE,MAAM,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,CAAA;QAC5B,MAAM,UAAU,GAAG,CAAC,GAAG,KAAK,CAAA;QAC5B,IAAI,QAAQ,GAAG,UAAU,CAAC,MAAM,CAAA;QAChC,IAAI,CAAC,QAAQ,EAAE;YACb,4EAA4E;YAC5E,QAAQ,IAAI,CAAC,CAAA;SACd;QAED,KAAK,IAAI,CAAC,GAAG,QAAQ,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC,IAAI,CAAC,EAAE;YACrC,MAAM,EAAE,GAAG,UAAU,CAAC,CAAC,CAAC,CAAA;YACxB,IAAI,EAAE,IAAI,EAAE,CAAC,cAAc,IAAI,CAAC,GAAG,UAAU,EAAE;gBAC7C,MAAM,WAAW,GAAG,MAAM,CAAC,EAAE,CAAC,WAAW,CAAC,CAAA;gBAE1C,OAAO,IAAI,SAAS,CAClB,IAAI,CAAC,GAAG,EACR,UAAU,EACV,WAAW,EACX,WAAW,EACX,iBAAiB,GAAG,CAAC,EACrB,SAAS,CACV,CAAA;aACF;SACF;QACD,OAAO,IAAI,CAAC,eAAe,CAAC,IAAI,CAAC,CAAA;IACnC,CAAC;CACF"}
|
|
@@ -29,7 +29,7 @@ export declare class BlockView {
|
|
|
29
29
|
private leafParser;
|
|
30
30
|
private bigBedParser;
|
|
31
31
|
constructor(bbi: GenericFilehandle, refsByName: any, cirTreeOffset: number, isBigEndian: boolean, isCompressed: boolean, blockType: string);
|
|
32
|
-
readWigData(chrName: string, start: number, end: number, observer: Observer<Feature[]>, opts
|
|
32
|
+
readWigData(chrName: string, start: number, end: number, observer: Observer<Feature[]>, opts?: Options): Promise<void>;
|
|
33
33
|
private parseSummaryBlock;
|
|
34
34
|
private parseBigBedBlock;
|
|
35
35
|
private parseBigWigBlock;
|
|
@@ -161,7 +161,7 @@ export class BlockView {
|
|
|
161
161
|
const p = this.leafParser.parse(data);
|
|
162
162
|
if (p.blocksToFetch) {
|
|
163
163
|
blocksToFetch = blocksToFetch.concat(p.blocksToFetch
|
|
164
|
-
.filter(filterFeats)
|
|
164
|
+
.filter(f => filterFeats(f))
|
|
165
165
|
.map((l) => ({
|
|
166
166
|
offset: l.blockOffset,
|
|
167
167
|
length: l.blockSize,
|
|
@@ -169,7 +169,7 @@ export class BlockView {
|
|
|
169
169
|
}
|
|
170
170
|
if (p.recurOffsets) {
|
|
171
171
|
const recurOffsets = p.recurOffsets
|
|
172
|
-
.filter(filterFeats)
|
|
172
|
+
.filter(f => filterFeats(f))
|
|
173
173
|
.map(l => Number(l.blockOffset));
|
|
174
174
|
if (recurOffsets.length > 0) {
|
|
175
175
|
cirFobRecur(recurOffsets, level + 1);
|
|
@@ -189,10 +189,10 @@ export class BlockView {
|
|
|
189
189
|
try {
|
|
190
190
|
const length = fr.max() - fr.min();
|
|
191
191
|
const offset = fr.min();
|
|
192
|
-
const resultBuffer = await this.featureCache.get(`${length}_${offset}`, { length, offset }, opts.signal);
|
|
193
|
-
for (
|
|
194
|
-
if (fr.contains(
|
|
195
|
-
cirFobRecur2(resultBuffer,
|
|
192
|
+
const resultBuffer = await this.featureCache.get(`${length}_${offset}`, { length, offset }, opts === null || opts === void 0 ? void 0 : opts.signal);
|
|
193
|
+
for (const element of off) {
|
|
194
|
+
if (fr.contains(element)) {
|
|
195
|
+
cirFobRecur2(resultBuffer, element - offset, level);
|
|
196
196
|
outstanding -= 1;
|
|
197
197
|
if (outstanding === 0) {
|
|
198
198
|
this.readFeatures(observer, blocksToFetch, { ...opts, request });
|
|
@@ -207,7 +207,8 @@ export class BlockView {
|
|
|
207
207
|
const cirFobRecur = (offset, level) => {
|
|
208
208
|
try {
|
|
209
209
|
outstanding += offset.length;
|
|
210
|
-
|
|
210
|
+
// Upper bound on size, based on a completely full leaf node.
|
|
211
|
+
const maxCirBlockSpan = 4 + Number(cirBlockSize) * 32;
|
|
211
212
|
let spans = new Range(offset[0], offset[0] + maxCirBlockSpan);
|
|
212
213
|
for (let i = 1; i < offset.length; i += 1) {
|
|
213
214
|
const blockSpan = new Range(offset[i], offset[i] + maxCirBlockSpan);
|
|
@@ -294,7 +295,7 @@ export class BlockView {
|
|
|
294
295
|
offset += 2;
|
|
295
296
|
const items = new Array(itemCount);
|
|
296
297
|
switch (blockType) {
|
|
297
|
-
case 1:
|
|
298
|
+
case 1: {
|
|
298
299
|
for (let i = 0; i < itemCount; i++) {
|
|
299
300
|
const start = dataView.getInt32(offset, true);
|
|
300
301
|
offset += 4;
|
|
@@ -305,7 +306,8 @@ export class BlockView {
|
|
|
305
306
|
items[i] = { start, end, score };
|
|
306
307
|
}
|
|
307
308
|
break;
|
|
308
|
-
|
|
309
|
+
}
|
|
310
|
+
case 2: {
|
|
309
311
|
for (let i = 0; i < itemCount; i++) {
|
|
310
312
|
const start = dataView.getInt32(offset, true);
|
|
311
313
|
offset += 4;
|
|
@@ -314,7 +316,8 @@ export class BlockView {
|
|
|
314
316
|
items[i] = { score, start, end: start + itemSpan };
|
|
315
317
|
}
|
|
316
318
|
break;
|
|
317
|
-
|
|
319
|
+
}
|
|
320
|
+
case 3: {
|
|
318
321
|
for (let i = 0; i < itemCount; i++) {
|
|
319
322
|
const score = dataView.getFloat32(offset, true);
|
|
320
323
|
offset += 4;
|
|
@@ -322,6 +325,7 @@ export class BlockView {
|
|
|
322
325
|
items[i] = { score, start, end: start + itemSpan };
|
|
323
326
|
}
|
|
324
327
|
break;
|
|
328
|
+
}
|
|
325
329
|
}
|
|
326
330
|
return request
|
|
327
331
|
? items.filter((f) => coordFilter(f.start, f.end, request.start, request.end))
|
|
@@ -337,7 +341,7 @@ export class BlockView {
|
|
|
337
341
|
checkAbortSignal(signal);
|
|
338
342
|
const { length, offset } = blockGroup;
|
|
339
343
|
const data = await this.featureCache.get(`${length}_${offset}`, blockGroup, signal);
|
|
340
|
-
blockGroup.blocks
|
|
344
|
+
for (const block of blockGroup.blocks) {
|
|
341
345
|
checkAbortSignal(signal);
|
|
342
346
|
let blockOffset = Number(block.offset) - Number(blockGroup.offset);
|
|
343
347
|
let resultData = data;
|
|
@@ -347,19 +351,23 @@ export class BlockView {
|
|
|
347
351
|
}
|
|
348
352
|
checkAbortSignal(signal);
|
|
349
353
|
switch (blockType) {
|
|
350
|
-
case 'summary':
|
|
354
|
+
case 'summary': {
|
|
351
355
|
observer.next(this.parseSummaryBlock(resultData, blockOffset, request));
|
|
352
356
|
break;
|
|
353
|
-
|
|
357
|
+
}
|
|
358
|
+
case 'bigwig': {
|
|
354
359
|
observer.next(this.parseBigWigBlock(resultData, blockOffset, request));
|
|
355
360
|
break;
|
|
356
|
-
|
|
361
|
+
}
|
|
362
|
+
case 'bigbed': {
|
|
357
363
|
observer.next(this.parseBigBedBlock(resultData, blockOffset, Number(block.offset) * (1 << 8), request));
|
|
358
364
|
break;
|
|
359
|
-
|
|
365
|
+
}
|
|
366
|
+
default: {
|
|
360
367
|
console.warn(`Don't know what to do with ${blockType}`);
|
|
368
|
+
}
|
|
361
369
|
}
|
|
362
|
-
}
|
|
370
|
+
}
|
|
363
371
|
}));
|
|
364
372
|
observer.complete();
|
|
365
373
|
}
|
|
@@ -368,4 +376,4 @@ export class BlockView {
|
|
|
368
376
|
}
|
|
369
377
|
}
|
|
370
378
|
}
|
|
371
|
-
//# sourceMappingURL=
|
|
379
|
+
//# sourceMappingURL=block-view.js.map
|
|
@@ -0,0 +1 @@
|
|
|
1
|
+
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|
package/esm/range.js
CHANGED
|
@@ -57,7 +57,7 @@ export default class Range {
|
|
|
57
57
|
return new Range(oranges);
|
|
58
58
|
}
|
|
59
59
|
intersection(arg) {
|
|
60
|
-
// eslint-disable-next-line @typescript-eslint/no-this-alias
|
|
60
|
+
// eslint-disable-next-line @typescript-eslint/no-this-alias,unicorn/no-this-assignment
|
|
61
61
|
let s0 = this;
|
|
62
62
|
let s1 = arg;
|
|
63
63
|
const r0 = this.ranges();
|
|
@@ -93,8 +93,7 @@ export default class Range {
|
|
|
93
93
|
coverage() {
|
|
94
94
|
let tot = 0;
|
|
95
95
|
const rl = this.ranges();
|
|
96
|
-
for (
|
|
97
|
-
const r = rl[ri];
|
|
96
|
+
for (const r of rl) {
|
|
98
97
|
tot += r.max() - r.min() + 1;
|
|
99
98
|
}
|
|
100
99
|
return tot;
|
|
@@ -104,7 +103,7 @@ export default class Range {
|
|
|
104
103
|
let b = tmpb;
|
|
105
104
|
if (arguments.length < 2) {
|
|
106
105
|
b = a;
|
|
107
|
-
// eslint-disable-next-line @typescript-eslint/no-this-alias
|
|
106
|
+
// eslint-disable-next-line @typescript-eslint/no-this-alias,unicorn/no-this-assignment
|
|
108
107
|
a = this;
|
|
109
108
|
}
|
|
110
109
|
if (a.min() < b.min()) {
|
package/esm/range.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"range.js","sourceRoot":"","sources":["../src/range.ts"],"names":[],"mappings":"AAAA,sDAAsD;AAEtD;;;GAGG;AACH,MAAM,CAAC,OAAO,OAAO,KAAK;IAGxB,YAAmB,IAAS,EAAE,IAAU;QACtC,IAAI,CAAC,MAAM;YACT,SAAS,CAAC,MAAM,KAAK,CAAC;gBACpB,CAAC,CAAC,CAAC,EAAE,GAAG,EAAE,IAAI,EAAE,GAAG,EAAE,IAAI,EAAE,CAAC;gBAC5B,CAAC,CAAC,CAAC,IAAI,IAAI;oBACX,CAAC,CAAC,MAAM,CAAC,MAAM,CAAC,EAAE,EAAE,IAAI,CAAC;oBACzB,CAAC,CAAC,CAAC,IAAI,CAAC,CAAA;IACd,CAAC;IAEM,GAAG;QACR,OAAO,IAAI,CAAC,MAAM,CAAC,CAAC,CAAC,CAAC,GAAG,CAAA;IAC3B,CAAC;IAEM,GAAG;QACR,OAAO,IAAI,CAAC,MAAM,CAAC,IAAI,CAAC,MAAM,CAAC,MAAM,GAAG,CAAC,CAAC,CAAC,GAAG,CAAA;IAChD,CAAC;IAEM,QAAQ,CAAC,GAAW;QACzB,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,IAAI,CAAC,MAAM,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE;YAC9C,MAAM,CAAC,GAAG,IAAI,CAAC,MAAM,CAAC,CAAC,CAAC,CAAA;YACxB,IAAI,CAAC,CAAC,GAAG,IAAI,GAAG,IAAI,CAAC,CAAC,GAAG,IAAI,GAAG,EAAE;gBAChC,OAAO,IAAI,CAAA;aACZ;SACF;QACD,OAAO,KAAK,CAAA;IACd,CAAC;IAEM,YAAY;QACjB,OAAO,IAAI,CAAC,MAAM,CAAC,MAAM,GAAG,CAAC,CAAA;IAC/B,CAAC;IAEM,SAAS;QACd,OAAO,IAAI,CAAC,MAAM,CAAC,GAAG,CAAC,CAAC,CAAQ,EAAE,EAAE,CAAC,IAAI,KAAK,CAAC,CAAC,CAAC,GAAG,EAAE,CAAC,CAAC,GAAG,CAAC,CAAC,CAAA;IAC/D,CAAC;IAEM,QAAQ;QACb,OAAO,IAAI,CAAC,MAAM,CAAC,GAAG,CAAC,CAAC,CAAQ,EAAE,EAAE,CAAC,IAAI,CAAC,CAAC,GAAG,IAAI,CAAC,CAAC,GAAG,GAAG,CAAC,CAAC,IAAI,CAAC,GAAG,CAAC,CAAA;IACvE,CAAC;IAEM,KAAK,CAAC,EAAS;QACpB,MAAM,MAAM,GAAG,IAAI,CAAC,SAAS,EAAE,CAAC,MAAM,CAAC,EAAE,CAAC,SAAS,EAAE,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,UAAU,CAAC,CAAA;QAC5E,MAAM,OAAO,GAAG,EAAE,CAAA;QAClB,IAAI,OAAO,GAAG,MAAM,CAAC,CAAC,CAAC,CAAA;QAEvB,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,MAAM,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE;YACzC,MAAM,GAAG,GAAG,MAAM,CAAC,CAAC,CAAC,CAAA;YACrB,IAAI,GAAG,CAAC,GAAG,EAAE,GAAG,OAAO,CAAC,GAAG,EAAE,GAAG,CAAC,EAAE;gBACjC,OAAO,CAAC,IAAI,CAAC,OAAO,CAAC,CAAA;gBACrB,OAAO,GAAG,GAAG,CAAA;aACd;iBAAM,IAAI,GAAG,CAAC,GAAG,EAAE,GAAG,OAAO,CAAC,GAAG,EAAE,EAAE;gBACpC,OAAO,GAAG,IAAI,KAAK,CAAC,OAAO,CAAC,GAAG,EAAE,EAAE,GAAG,CAAC,GAAG,EAAE,CAAC,CAAA;aAC9C;SACF;QACD,OAAO,CAAC,IAAI,CAAC,OAAO,CAAC,CAAA;QAErB,IAAI,OAAO,CAAC,MAAM,KAAK,CAAC,EAAE;YACxB,OAAO,OAAO,CAAC,CAAC,CAAC,CAAA;SAClB;QACD,OAAO,IAAI,KAAK,CAAC,OAAO,CAAC,CAAA;IAC3B,CAAC;IAEM,YAAY,CAAC,GAAU;QAC5B,
|
|
1
|
+
{"version":3,"file":"range.js","sourceRoot":"","sources":["../src/range.ts"],"names":[],"mappings":"AAAA,sDAAsD;AAEtD;;;GAGG;AACH,MAAM,CAAC,OAAO,OAAO,KAAK;IAGxB,YAAmB,IAAS,EAAE,IAAU;QACtC,IAAI,CAAC,MAAM;YACT,SAAS,CAAC,MAAM,KAAK,CAAC;gBACpB,CAAC,CAAC,CAAC,EAAE,GAAG,EAAE,IAAI,EAAE,GAAG,EAAE,IAAI,EAAE,CAAC;gBAC5B,CAAC,CAAC,CAAC,IAAI,IAAI;oBACX,CAAC,CAAC,MAAM,CAAC,MAAM,CAAC,EAAE,EAAE,IAAI,CAAC;oBACzB,CAAC,CAAC,CAAC,IAAI,CAAC,CAAA;IACd,CAAC;IAEM,GAAG;QACR,OAAO,IAAI,CAAC,MAAM,CAAC,CAAC,CAAC,CAAC,GAAG,CAAA;IAC3B,CAAC;IAEM,GAAG;QACR,OAAO,IAAI,CAAC,MAAM,CAAC,IAAI,CAAC,MAAM,CAAC,MAAM,GAAG,CAAC,CAAC,CAAC,GAAG,CAAA;IAChD,CAAC;IAEM,QAAQ,CAAC,GAAW;QACzB,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,IAAI,CAAC,MAAM,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE;YAC9C,MAAM,CAAC,GAAG,IAAI,CAAC,MAAM,CAAC,CAAC,CAAC,CAAA;YACxB,IAAI,CAAC,CAAC,GAAG,IAAI,GAAG,IAAI,CAAC,CAAC,GAAG,IAAI,GAAG,EAAE;gBAChC,OAAO,IAAI,CAAA;aACZ;SACF;QACD,OAAO,KAAK,CAAA;IACd,CAAC;IAEM,YAAY;QACjB,OAAO,IAAI,CAAC,MAAM,CAAC,MAAM,GAAG,CAAC,CAAA;IAC/B,CAAC;IAEM,SAAS;QACd,OAAO,IAAI,CAAC,MAAM,CAAC,GAAG,CAAC,CAAC,CAAQ,EAAE,EAAE,CAAC,IAAI,KAAK,CAAC,CAAC,CAAC,GAAG,EAAE,CAAC,CAAC,GAAG,CAAC,CAAC,CAAA;IAC/D,CAAC;IAEM,QAAQ;QACb,OAAO,IAAI,CAAC,MAAM,CAAC,GAAG,CAAC,CAAC,CAAQ,EAAE,EAAE,CAAC,IAAI,CAAC,CAAC,GAAG,IAAI,CAAC,CAAC,GAAG,GAAG,CAAC,CAAC,IAAI,CAAC,GAAG,CAAC,CAAA;IACvE,CAAC;IAEM,KAAK,CAAC,EAAS;QACpB,MAAM,MAAM,GAAG,IAAI,CAAC,SAAS,EAAE,CAAC,MAAM,CAAC,EAAE,CAAC,SAAS,EAAE,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,UAAU,CAAC,CAAA;QAC5E,MAAM,OAAO,GAAG,EAAE,CAAA;QAClB,IAAI,OAAO,GAAG,MAAM,CAAC,CAAC,CAAC,CAAA;QAEvB,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,MAAM,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE;YACzC,MAAM,GAAG,GAAG,MAAM,CAAC,CAAC,CAAC,CAAA;YACrB,IAAI,GAAG,CAAC,GAAG,EAAE,GAAG,OAAO,CAAC,GAAG,EAAE,GAAG,CAAC,EAAE;gBACjC,OAAO,CAAC,IAAI,CAAC,OAAO,CAAC,CAAA;gBACrB,OAAO,GAAG,GAAG,CAAA;aACd;iBAAM,IAAI,GAAG,CAAC,GAAG,EAAE,GAAG,OAAO,CAAC,GAAG,EAAE,EAAE;gBACpC,OAAO,GAAG,IAAI,KAAK,CAAC,OAAO,CAAC,GAAG,EAAE,EAAE,GAAG,CAAC,GAAG,EAAE,CAAC,CAAA;aAC9C;SACF;QACD,OAAO,CAAC,IAAI,CAAC,OAAO,CAAC,CAAA;QAErB,IAAI,OAAO,CAAC,MAAM,KAAK,CAAC,EAAE;YACxB,OAAO,OAAO,CAAC,CAAC,CAAC,CAAA;SAClB;QACD,OAAO,IAAI,KAAK,CAAC,OAAO,CAAC,CAAA;IAC3B,CAAC;IAEM,YAAY,CAAC,GAAU;QAC5B,uFAAuF;QACvF,IAAI,EAAE,GAAG,IAAI,CAAA;QACb,IAAI,EAAE,GAAG,GAAG,CAAA;QACZ,MAAM,EAAE,GAAG,IAAI,CAAC,MAAM,EAAE,CAAA;QACxB,MAAM,EAAE,GAAG,EAAE,CAAC,MAAM,EAAE,CAAA;QACtB,MAAM,EAAE,GAAG,EAAE,CAAC,MAAM,CAAA;QAEpB,MAAM,EAAE,GAAG,EAAE,CAAC,MAAM,CAAA;QACpB,IAAI,EAAE,GAAG,CAAC,CAAA;QAEV,IAAI,EAAE,GAAG,CAAC,CAAA;QACV,MAAM,EAAE,GAAG,EAAE,CAAA;QAEb,OAAO,EAAE,GAAG,EAAE,IAAI,EAAE,GAAG,EAAE,EAAE;YACzB,EAAE,GAAG,EAAE,CAAC,EAAE,CAAC,CAAA;YACX,EAAE,GAAG,EAAE,CAAC,EAAE,CAAC,CAAA;YACX,MAAM,MAAM,GAAG,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,EAAE,EAAE,EAAE,CAAC,GAAG,EAAE,CAAC,CAAA;YAC3C,MAAM,MAAM,GAAG,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,EAAE,EAAE,EAAE,CAAC,GAAG,EAAE,CAAC,CAAA;YAC3C,IAAI,MAAM,IAAI,MAAM,EAAE;gBACpB,EAAE,CAAC,IAAI,CAAC,IAAI,KAAK,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC,CAAA;aACnC;YACD,IAAI,EAAE,CAAC,GAAG,EAAE,GAAG,EAAE,CAAC,GAAG,EAAE,EAAE;gBACvB,EAAE,IAAI,CAAC,CAAA;aACR;iBAAM;gBACL,EAAE,IAAI,CAAC,CAAA;aACR;SACF;QAED,IAAI,EAAE,CAAC,MAAM,KAAK,CAAC,EAAE;YACnB,MAAM,IAAI,KAAK,CAAC,yBAAyB,CAAC,CAAA;SAC3C;QACD,IAAI,EAAE,CAAC,MAAM,KAAK,CAAC,EAAE;YACnB,OAAO,EAAE,CAAC,CAAC,CAAC,CAAA;SACb;QACD,OAAO,IAAI,KAAK,CAAC,EAAE,CAAC,CAAA;IACtB,CAAC;IAEM,QAAQ;QACb,IAAI,GAAG,GAAG,CAAC,CAAA;QACX,MAAM,EAAE,GAAG,IAAI,CAAC,MAAM,EAAE,CAAA;QACxB,KAAK,MAAM,CAAC,IAAI,EAAE,EAAE;YAClB,GAAG,IAAI,CAAC,CAAC,GAAG,EAAE,GAAG,CAAC,CAAC,GAAG,EAAE,GAAG,CAAC,CAAA;SAC7B;QACD,OAAO,GAAG,CAAA;IACZ,CAAC;IAEM,UAAU,CAAC,IAAW,EAAE,IAAW;QACxC,IAAI,CAAC,GAAG,IAAI,CAAA;QACZ,IAAI,CAAC,GAAG,IAAI,CAAA;QACZ,IAAI,SAAS,CAAC,MAAM,GAAG,CAAC,EAAE;YACxB,CAAC,GAAG,CAAC,CAAA;YACL,uFAAuF;YACvF,CAAC,GAAG,IAAI,CAAA;SACT;QAED,IAAI,CAAC,CAAC,GAAG,EAAE,GAAG,CAAC,CAAC,GAAG,EAAE,EAAE;YACrB,OAAO,CAAC,CAAC,CAAA;SACV;QACD,IAAI,CAAC,CAAC,GAAG,EAAE,GAAG,CAAC,CAAC,GAAG,EAAE,EAAE;YACrB,OAAO,CAAC,CAAA;SACT;QACD,IAAI,CAAC,CAAC,GAAG,EAAE,GAAG,CAAC,CAAC,GAAG,EAAE,EAAE;YACrB,OAAO,CAAC,CAAC,CAAA;SACV;QACD,IAAI,CAAC,CAAC,GAAG,EAAE,GAAG,CAAC,CAAC,GAAG,EAAE,EAAE;YACrB,OAAO,CAAC,CAAA;SACT;QACD,OAAO,CAAC,CAAA;IACV,CAAC;CACF"}
|
package/esm/unzip.d.ts
CHANGED
|
@@ -1,2 +1 @@
|
|
|
1
|
-
|
|
2
|
-
export { inflateSync as unzip };
|
|
1
|
+
export { inflateSync as unzip } from 'zlib';
|
package/esm/unzip.js
CHANGED
package/esm/unzip.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"unzip.js","sourceRoot":"","sources":["../src/unzip.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,WAAW,EAAE,MAAM,MAAM,CAAA
|
|
1
|
+
{"version":3,"file":"unzip.js","sourceRoot":"","sources":["../src/unzip.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,WAAW,IAAI,KAAK,EAAE,MAAM,MAAM,CAAA"}
|
package/esm/util.js
CHANGED
|
@@ -12,21 +12,21 @@ export function groupBlocks(blocks) {
|
|
|
12
12
|
const blockGroups = [];
|
|
13
13
|
let lastBlock;
|
|
14
14
|
let lastBlockEnd;
|
|
15
|
-
for (
|
|
15
|
+
for (const block of blocks) {
|
|
16
16
|
if (lastBlock &&
|
|
17
17
|
lastBlockEnd &&
|
|
18
|
-
Number(
|
|
18
|
+
Number(block.offset) - lastBlockEnd <= 2000) {
|
|
19
19
|
lastBlock.length = BigInt(Number(lastBlock.length) +
|
|
20
|
-
Number(
|
|
20
|
+
Number(block.length) -
|
|
21
21
|
lastBlockEnd +
|
|
22
|
-
Number(
|
|
23
|
-
lastBlock.blocks.push(
|
|
22
|
+
Number(block.offset));
|
|
23
|
+
lastBlock.blocks.push(block);
|
|
24
24
|
}
|
|
25
25
|
else {
|
|
26
26
|
blockGroups.push((lastBlock = {
|
|
27
|
-
blocks: [
|
|
28
|
-
length:
|
|
29
|
-
offset:
|
|
27
|
+
blocks: [block],
|
|
28
|
+
length: block.length,
|
|
29
|
+
offset: block.offset,
|
|
30
30
|
}));
|
|
31
31
|
}
|
|
32
32
|
lastBlockEnd = Number(lastBlock.offset) + Number(lastBlock.length);
|
|
@@ -50,14 +50,14 @@ export function checkAbortSignal(signal) {
|
|
|
50
50
|
}
|
|
51
51
|
if (signal.aborted) {
|
|
52
52
|
// console.log('bam aborted!')
|
|
53
|
-
if (typeof DOMException
|
|
54
|
-
throw new DOMException('aborted', 'AbortError');
|
|
55
|
-
}
|
|
56
|
-
else {
|
|
53
|
+
if (typeof DOMException === 'undefined') {
|
|
57
54
|
const e = new AbortError('aborted');
|
|
58
55
|
e.code = 'ERR_ABORTED';
|
|
59
56
|
throw e;
|
|
60
57
|
}
|
|
58
|
+
else {
|
|
59
|
+
throw new DOMException('aborted', 'AbortError');
|
|
60
|
+
}
|
|
61
61
|
}
|
|
62
62
|
}
|
|
63
63
|
/**
|
package/esm/util.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"util.js","sourceRoot":"","sources":["../src/util.ts"],"names":[],"mappings":"AAAA,sDAAsD;AACtD,MAAM,OAAO,UAAW,SAAQ,KAAK;IAGnC,YAAmB,OAAe;QAChC,KAAK,CAAC,OAAO,CAAC,CAAA;QACd,IAAI,CAAC,IAAI,GAAG,aAAa,CAAA;IAC3B,CAAC;CACF;AACD,iCAAiC;AACjC,gDAAgD;AAChD,MAAM,UAAU,WAAW,CAAC,MAA4C;IACtE,MAAM,CAAC,IAAI,CAAC,CAAC,EAAE,EAAE,EAAE,EAAE,EAAE,CAAC,MAAM,CAAC,EAAE,CAAC,MAAM,CAAC,GAAG,MAAM,CAAC,EAAE,CAAC,MAAM,CAAC,CAAC,CAAA;IAE9D,MAAM,WAAW,GAAG,EAAE,CAAA;IACtB,IAAI,SAAS,CAAA;IACb,IAAI,YAAY,CAAA;IAChB,KAAK,
|
|
1
|
+
{"version":3,"file":"util.js","sourceRoot":"","sources":["../src/util.ts"],"names":[],"mappings":"AAAA,sDAAsD;AACtD,MAAM,OAAO,UAAW,SAAQ,KAAK;IAGnC,YAAmB,OAAe;QAChC,KAAK,CAAC,OAAO,CAAC,CAAA;QACd,IAAI,CAAC,IAAI,GAAG,aAAa,CAAA;IAC3B,CAAC;CACF;AACD,iCAAiC;AACjC,gDAAgD;AAChD,MAAM,UAAU,WAAW,CAAC,MAA4C;IACtE,MAAM,CAAC,IAAI,CAAC,CAAC,EAAE,EAAE,EAAE,EAAE,EAAE,CAAC,MAAM,CAAC,EAAE,CAAC,MAAM,CAAC,GAAG,MAAM,CAAC,EAAE,CAAC,MAAM,CAAC,CAAC,CAAA;IAE9D,MAAM,WAAW,GAAG,EAAE,CAAA;IACtB,IAAI,SAAS,CAAA;IACb,IAAI,YAAY,CAAA;IAChB,KAAK,MAAM,KAAK,IAAI,MAAM,EAAE;QAC1B,IACE,SAAS;YACT,YAAY;YACZ,MAAM,CAAC,KAAK,CAAC,MAAM,CAAC,GAAG,YAAY,IAAI,IAAI,EAC3C;YACA,SAAS,CAAC,MAAM,GAAG,MAAM,CACvB,MAAM,CAAC,SAAS,CAAC,MAAM,CAAC;gBACtB,MAAM,CAAC,KAAK,CAAC,MAAM,CAAC;gBACpB,YAAY;gBACZ,MAAM,CAAC,KAAK,CAAC,MAAM,CAAC,CACvB,CAAA;YACD,SAAS,CAAC,MAAM,CAAC,IAAI,CAAC,KAAK,CAAC,CAAA;SAC7B;aAAM;YACL,WAAW,CAAC,IAAI,CACd,CAAC,SAAS,GAAG;gBACX,MAAM,EAAE,CAAC,KAAK,CAAC;gBACf,MAAM,EAAE,KAAK,CAAC,MAAM;gBACpB,MAAM,EAAE,KAAK,CAAC,MAAM;aACrB,CAAC,CACH,CAAA;SACF;QACD,YAAY,GAAG,MAAM,CAAC,SAAS,CAAC,MAAM,CAAC,GAAG,MAAM,CAAC,SAAS,CAAC,MAAM,CAAC,CAAA;KACnE;IAED,OAAO,WAAW,CAAA;AACpB,CAAC;AAED;;;;;;;;;;GAUG;AACH,MAAM,UAAU,gBAAgB,CAAC,MAAoB;IACnD,IAAI,CAAC,MAAM,EAAE;QACX,OAAM;KACP;IAED,IAAI,MAAM,CAAC,OAAO,EAAE;QAClB,8BAA8B;QAC9B,IAAI,OAAO,YAAY,KAAK,WAAW,EAAE;YACvC,MAAM,CAAC,GAAG,IAAI,UAAU,CAAC,SAAS,CAAC,CAAA;YACnC,CAAC,CAAC,IAAI,GAAG,aAAa,CAAA;YACtB,MAAM,CAAC,CAAA;SACR;aAAM;YACL,MAAM,IAAI,YAAY,CAAC,SAAS,EAAE,YAAY,CAAC,CAAA;SAChD;KACF;AACH,CAAC;AAED;;;;;GAKG;AACH,MAAM,CAAC,KAAK,UAAU,eAAe,CAAC,MAAoB;IACxD,MAAM,OAAO,CAAC,OAAO,EAAE,CAAA;IACvB,gBAAgB,CAAC,MAAM,CAAC,CAAA;AAC1B,CAAC"}
|