@gmod/bbi 7.1.0 → 8.0.0
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 +4 -0
- package/README.md +59 -0
- package/dist/bbi.d.ts +13 -3
- package/dist/bbi.js +77 -17
- package/dist/bbi.js.map +1 -1
- package/dist/bigbed.d.ts +14 -2
- package/dist/bigbed.js +115 -76
- package/dist/bigbed.js.map +1 -1
- package/dist/bigwig.js +1 -2
- package/dist/bigwig.js.map +1 -1
- package/dist/block-view.d.ts +13 -4
- package/dist/block-view.js +324 -148
- package/dist/block-view.js.map +1 -1
- package/dist/index.d.ts +2 -1
- package/dist/index.js +3 -1
- package/dist/index.js.map +1 -1
- package/dist/parse-bigwig.d.ts +3 -0
- package/dist/parse-bigwig.js +15 -0
- package/dist/parse-bigwig.js.map +1 -0
- package/dist/range.js +11 -24
- package/dist/range.js.map +1 -1
- package/dist/types.d.ts +14 -2
- package/dist/unzip.d.ts +18 -1
- package/dist/unzip.js +33 -4
- package/dist/unzip.js.map +1 -1
- package/dist/util.d.ts +2 -4
- package/dist/util.js +6 -5
- package/dist/util.js.map +1 -1
- package/dist/wasm/inflate-wasm-inlined.d.ts +19 -0
- package/dist/wasm/inflate-wasm-inlined.js +117 -0
- package/dist/wasm/inflate-wasm-inlined.js.map +1 -0
- package/dist/wasm/inflate_wasm.d.ts +1 -0
- package/dist/wasm/inflate_wasm.js +43 -0
- package/dist/wasm/inflate_wasm.js.map +1 -0
- package/dist/wasm/inflate_wasm_bg.d.ts +68 -0
- package/dist/wasm/inflate_wasm_bg.js +307 -0
- package/dist/wasm/inflate_wasm_bg.js.map +1 -0
- package/esm/bbi.d.ts +13 -3
- package/esm/bbi.js +77 -17
- package/esm/bbi.js.map +1 -1
- package/esm/bigbed.d.ts +14 -2
- package/esm/bigbed.js +115 -76
- package/esm/bigbed.js.map +1 -1
- package/esm/bigwig.js +1 -2
- package/esm/bigwig.js.map +1 -1
- package/esm/block-view.d.ts +13 -4
- package/esm/block-view.js +326 -150
- package/esm/block-view.js.map +1 -1
- package/esm/index.d.ts +2 -1
- package/esm/index.js +1 -0
- package/esm/index.js.map +1 -1
- package/esm/parse-bigwig.d.ts +3 -0
- package/esm/parse-bigwig.js +12 -0
- package/esm/parse-bigwig.js.map +1 -0
- package/esm/range.js +11 -24
- package/esm/range.js.map +1 -1
- package/esm/types.d.ts +14 -2
- package/esm/unzip.d.ts +18 -1
- package/esm/unzip.js +30 -3
- package/esm/unzip.js.map +1 -1
- package/esm/util.d.ts +2 -4
- package/esm/util.js +6 -5
- package/esm/util.js.map +1 -1
- package/esm/wasm/inflate-wasm-inlined.d.ts +19 -0
- package/esm/wasm/inflate-wasm-inlined.js +111 -0
- package/esm/wasm/inflate-wasm-inlined.js.map +1 -0
- package/esm/wasm/inflate_wasm.d.ts +1 -0
- package/esm/wasm/inflate_wasm.js +5 -0
- package/esm/wasm/inflate_wasm.js.map +1 -0
- package/esm/wasm/inflate_wasm_bg.d.ts +68 -0
- package/esm/wasm/inflate_wasm_bg.js +296 -0
- package/esm/wasm/inflate_wasm_bg.js.map +1 -0
- package/package.json +15 -10
- package/src/bbi.ts +100 -20
- package/src/bigbed.ts +157 -80
- package/src/bigwig.ts +1 -2
- package/src/block-view.ts +415 -156
- package/src/index.ts +8 -1
- package/src/parse-bigwig.ts +19 -0
- package/src/range.ts +13 -21
- package/src/types.ts +19 -2
- package/src/unzip.ts +88 -3
- package/src/util.ts +9 -10
- package/src/wasm/inflate-wasm-inlined.d.ts +49 -0
- package/src/wasm/inflate-wasm-inlined.js +1 -0
- package/src/wasm/inflate_wasm.d.ts +35 -0
- package/src/wasm/inflate_wasm.js +4 -0
- package/src/wasm/inflate_wasm_bg.js +309 -0
- package/src/wasm/inflate_wasm_bg.wasm +0 -0
- package/src/wasm/inflate_wasm_bg.wasm.d.ts +13 -0
package/dist/bigbed.js.map
CHANGED
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@@ -1 +1 @@
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1
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-
{"version":3,"file":"bigbed.js","sourceRoot":"","sources":["../src/bigbed.ts"],"names":[],"mappings":";;;;;;
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1
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+
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package/dist/bigwig.js
CHANGED
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@@ -18,9 +18,8 @@ class BigWig extends bbi_ts_1.BBI {
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const maxLevel = zoomLevels.length - 1;
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for (let i = maxLevel; i >= 0; i -= 1) {
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const zh = zoomLevels[i];
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// eslint-disable-next-line @typescript-eslint/no-unnecessary-condition
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if (zh && zh.reductionLevel <= 2 * basesPerPx) {
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-
return new block_view_ts_1.BlockView(this.bbi, refsByName, zh.indexOffset, uncompressBufSize
|
|
22
|
+
return new block_view_ts_1.BlockView(this.bbi, refsByName, zh.indexOffset, uncompressBufSize, 'summary');
|
|
24
23
|
}
|
|
25
24
|
}
|
|
26
25
|
return this.getUnzoomedView(opts);
|
package/dist/bigwig.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"bigwig.js","sourceRoot":"","sources":["../src/bigwig.ts"],"names":[],"mappings":";;;AAAA,qCAA8B;AAC9B,mDAA2C;AAI3C,MAAa,MAAO,SAAQ,YAAG;IAC7B;;;;;;;OAOG;IACO,KAAK,CAAC,OAAO,CAAC,KAAa,EAAE,IAAoB;QACzD,MAAM,EAAE,UAAU,EAAE,UAAU,EAAE,iBAAiB,EAAE,GACjD,MAAM,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,CAAA;QAC5B,MAAM,UAAU,GAAG,CAAC,GAAG,KAAK,CAAA;QAC5B,MAAM,QAAQ,GAAG,UAAU,CAAC,MAAM,GAAG,CAAC,CAAA;QAEtC,KAAK,IAAI,CAAC,GAAG,QAAQ,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC;YACtC,MAAM,EAAE,GAAG,UAAU,CAAC,CAAC,CAAC,CAAA;YACxB,
|
|
1
|
+
{"version":3,"file":"bigwig.js","sourceRoot":"","sources":["../src/bigwig.ts"],"names":[],"mappings":";;;AAAA,qCAA8B;AAC9B,mDAA2C;AAI3C,MAAa,MAAO,SAAQ,YAAG;IAC7B;;;;;;;OAOG;IACO,KAAK,CAAC,OAAO,CAAC,KAAa,EAAE,IAAoB;QACzD,MAAM,EAAE,UAAU,EAAE,UAAU,EAAE,iBAAiB,EAAE,GACjD,MAAM,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,CAAA;QAC5B,MAAM,UAAU,GAAG,CAAC,GAAG,KAAK,CAAA;QAC5B,MAAM,QAAQ,GAAG,UAAU,CAAC,MAAM,GAAG,CAAC,CAAA;QAEtC,KAAK,IAAI,CAAC,GAAG,QAAQ,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC;YACtC,MAAM,EAAE,GAAG,UAAU,CAAC,CAAC,CAAC,CAAA;YACxB,IAAI,EAAE,IAAI,EAAE,CAAC,cAAc,IAAI,CAAC,GAAG,UAAU,EAAE,CAAC;gBAC9C,OAAO,IAAI,yBAAS,CAClB,IAAI,CAAC,GAAG,EACR,UAAU,EACV,EAAE,CAAC,WAAW,EACd,iBAAiB,EACjB,SAAS,CACV,CAAA;YACH,CAAC;QACH,CAAC;QACD,OAAO,IAAI,CAAC,eAAe,CAAC,IAAI,CAAC,CAAA;IACnC,CAAC;CACF;AA7BD,wBA6BC"}
|
package/dist/block-view.d.ts
CHANGED
|
@@ -1,4 +1,5 @@
|
|
|
1
1
|
import type { Feature } from './types.ts';
|
|
2
|
+
import type { BigWigFeatureArrays, SummaryFeatureArrays } from './unzip.ts';
|
|
2
3
|
import type { GenericFilehandle } from 'generic-filehandle2';
|
|
3
4
|
import type { Observer } from 'rxjs';
|
|
4
5
|
interface CoordRequest {
|
|
@@ -19,12 +20,12 @@ interface Options {
|
|
|
19
20
|
export declare class BlockView {
|
|
20
21
|
private bbi;
|
|
21
22
|
private refsByName;
|
|
22
|
-
private
|
|
23
|
-
private
|
|
23
|
+
private rTreeOffset;
|
|
24
|
+
private uncompressBufSize;
|
|
24
25
|
private blockType;
|
|
25
|
-
private
|
|
26
|
+
private rTreePromise?;
|
|
26
27
|
private featureCache;
|
|
27
|
-
constructor(bbi: GenericFilehandle, refsByName:
|
|
28
|
+
constructor(bbi: GenericFilehandle, refsByName: Record<string, number>, rTreeOffset: number, uncompressBufSize: number, blockType: string);
|
|
28
29
|
readWigData(chrName: string, start: number, end: number, observer: Observer<Feature[]>, opts?: Options): Promise<void>;
|
|
29
30
|
private parseSummaryBlock;
|
|
30
31
|
private parseBigBedBlock;
|
|
@@ -33,5 +34,13 @@ export declare class BlockView {
|
|
|
33
34
|
offset: number;
|
|
34
35
|
length: number;
|
|
35
36
|
}[], opts?: Options): Promise<void>;
|
|
37
|
+
readBigWigFeaturesAsArrays(blocks: {
|
|
38
|
+
offset: number;
|
|
39
|
+
length: number;
|
|
40
|
+
}[], opts?: Options): Promise<BigWigFeatureArrays>;
|
|
41
|
+
readSummaryFeaturesAsArrays(blocks: {
|
|
42
|
+
offset: number;
|
|
43
|
+
length: number;
|
|
44
|
+
}[], opts?: Options): Promise<SummaryFeatureArrays>;
|
|
36
45
|
}
|
|
37
46
|
export {};
|