npm - @gmod/bam - Versions diffs - 7.1.5 → 7.1.6 - Mend

@gmod/bam 7.1.5 → 7.1.6

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.

Files changed (19) hide show

package/CHANGELOG.md CHANGED Viewed

@@ -1,6 +1,8 @@
-## [7.1.5](https://github.com/GMOD/bam-js/compare/v7.1.4...v7.1.5) (2025-12-13)
+## [7.1.6](https://github.com/GMOD/bam-js/compare/v7.1.5...v7.1.6) (2025-12-13)
+## [7.1.5](https://github.com/GMOD/bam-js/compare/v7.1.4...v7.1.5) (2025-12-13)
 ## [7.1.4](https://github.com/GMOD/bam-js/compare/v7.1.3...v7.1.4) (2025-12-13)

package/README.md CHANGED Viewed

@@ -141,21 +141,49 @@ refName not exist in sample
 Returns whether we have this refName in the sample
-### Returned features
-Example
+### BamRecord properties
 ```typescript
-feature.ref_id // numerical sequence id corresponding to position in the sam header
-feature.start // 0-based half open start coordinate
-feature.end // 0-based half open end coordinate
-feature.name // QNAME
-feature.seq // feature sequence
-feature.qual // qualities
-feature.CIGAR // CIGAR string
-feature.tags // tags
-feature.flags // flags
-feature.template_length // TLEN
+// Core alignment fields
+record.ref_id // numerical sequence id from SAM header
+record.start // 0-based start coordinate
+record.end // 0-based end coordinate
+record.name // QNAME
+record.seq // sequence string
+record.qual // Uint8Array of quality scores (null if unmapped)
+record.CIGAR // CIGAR string e.g. "50M2I48M"
+record.flags // SAM flags integer
+record.mq // mapping quality (undefined if 255)
+record.strand // 1 or -1
+record.template_length // TLEN
+// Auxiliary data
+record.tags // object with all aux tags e.g. {MD: "100", NM: 0}
+record.NUMERIC_MD // MD tag as Uint8Array (for fast mismatch rendering)
+record.NUMERIC_CIGAR // Uint32Array of packed CIGAR operations
+record.NUMERIC_SEQ // Uint8Array of packed sequence (4-bit encoded)
+// Mate info
+record.next_refid // mate reference id
+record.next_pos // mate position
+// Flag methods
+record.isPaired()
+record.isProperlyPaired()
+record.isSegmentUnmapped()
+record.isMateUnmapped()
+record.isReverseComplemented()
+record.isMateReverseComplemented()
+record.isRead1()
+record.isRead2()
+record.isSecondary()
+record.isFailedQc()
+record.isDuplicate()
+record.isSupplementary()
+// Utility
+record.seqAt(idx) // get single base at position
+record.toJSON() // serialize record
 ```
 ## License

package/dist/bamFile.d.ts CHANGED Viewed

@@ -3,10 +3,24 @@ import BAI from './bai.ts';
 import Chunk from './chunk.ts';
 import CSI from './csi.ts';
 import BAMFeature from './record.ts';
+import type { Bytes } from './record.ts';
 import type { BamOpts, BaseOpts } from './util.ts';
 import type { GenericFilehandle } from 'generic-filehandle2';
+export interface BamRecordLike {
+    ref_id: number;
+    start: number;
+    end: number;
+    name: string;
+    id: number;
+    next_pos: number;
+    next_refid: number;
+}
+export type BamRecordClass<T extends BamRecordLike = BAMFeature> = new (args: {
+    bytes: Bytes;
+    fileOffset: number;
+}) => T;
 export declare const BAM_MAGIC = 21840194;
-export default class BamFile {
+export default class BamFile<T extends BamRecordLike = BAMFeature> {
     renameRefSeq: (a: string) => string;
     bam: GenericFilehandle;
     header?: string;
@@ -17,7 +31,7 @@ export default class BamFile {
     }[];
     index?: BAI | CSI;
     htsget: boolean;
-    headerP?: ReturnType<BamFile['getHeaderPre']>;
+    headerP?: ReturnType<BamFile<T>['getHeaderPre']>;
     cache: QuickLRU<string, {
         bytesRead: number;
         buffer: Uint8Array;
@@ -26,9 +40,10 @@ export default class BamFile {
     chunkFeatureCache: QuickLRU<string, {
         minBlock: number;
         maxBlock: number;
-        features: BAMFeature[];
+        features: T[];
     }>;
-    constructor({ bamFilehandle, bamPath, bamUrl, baiPath, baiFilehandle, baiUrl, csiPath, csiFilehandle, csiUrl, htsget, renameRefSeqs, }: {
+    private RecordClass;
+    constructor({ bamFilehandle, bamPath, bamUrl, baiPath, baiFilehandle, baiUrl, csiPath, csiFilehandle, csiUrl, htsget, renameRefSeqs, recordClass, }: {
         bamFilehandle?: GenericFilehandle;
         bamPath?: string;
         bamUrl?: string;
@@ -40,6 +55,7 @@ export default class BamFile {
         csiUrl?: string;
         renameRefSeqs?: (a: string) => string;
         htsget?: boolean;
+        recordClass?: BamRecordClass<T>;
     });
     getHeaderPre(origOpts?: BaseOpts): Promise<{
         tag: string;
@@ -63,13 +79,13 @@ export default class BamFile {
             length: number;
         }[];
     };
-    getRecordsForRange(chr: string, min: number, max: number, opts?: BamOpts): Promise<BAMFeature[]>;
-    streamRecordsForRange(chr: string, min: number, max: number, opts?: BamOpts): AsyncGenerator<BAMFeature[], void, unknown>;
+    getRecordsForRange(chr: string, min: number, max: number, opts?: BamOpts): Promise<T[]>;
+    streamRecordsForRange(chr: string, min: number, max: number, opts?: BamOpts): AsyncGenerator<T[], void, unknown>;
     private chunkCacheKey;
     private blocksOverlap;
     private evictOverlappingChunks;
-    _fetchChunkFeatures(chunks: Chunk[], chrId: number, min: number, max: number, opts?: BamOpts): AsyncGenerator<BAMFeature[], void, unknown>;
-    fetchPairs(chrId: number, feats: BAMFeature[][], opts: BamOpts): Promise<BAMFeature[]>;
+    _fetchChunkFeatures(chunks: Chunk[], chrId: number, min: number, max: number, opts?: BamOpts): AsyncGenerator<T[], void, unknown>;
+    fetchPairs(chrId: number, feats: T[][], opts: BamOpts): Promise<T[]>;
     _readChunk({ chunk, opts }: {
         chunk: Chunk;
         opts: BaseOpts;
@@ -79,7 +95,7 @@ export default class BamFile {
         dpositions: number[];
         chunk: Chunk;
     }>;
-    readBamFeatures(ba: Uint8Array, cpositions: number[], dpositions: number[], chunk: Chunk): Promise<BAMFeature[]>;
+    readBamFeatures(ba: Uint8Array, cpositions: number[], dpositions: number[], chunk: Chunk): Promise<T[]>;
     _shouldIncludeFeature(dataView: DataView, blockStart: number, chrId: number, max: number): boolean;
     hasRefSeq(seqName: string): Promise<boolean | undefined>;
     lineCount(seqName: string): Promise<number>;

package/dist/bamFile.js CHANGED Viewed

@@ -17,7 +17,7 @@ const util_ts_1 = require("./util.js");
 exports.BAM_MAGIC = 21840194;
 const blockLen = 1 << 16;
 class BamFile {
-    constructor({ bamFilehandle, bamPath, bamUrl, baiPath, baiFilehandle, baiUrl, csiPath, csiFilehandle, csiUrl, htsget, renameRefSeqs = n => n, }) {
+    constructor({ bamFilehandle, bamPath, bamUrl, baiPath, baiFilehandle, baiUrl, csiPath, csiFilehandle, csiUrl, htsget, renameRefSeqs = n => n, recordClass, }) {
         this.htsget = false;
         this.cache = new quick_lru_1.default({
             maxSize: 1000,
@@ -26,6 +26,7 @@ class BamFile {
         // When a new chunk overlaps a cached chunk, we evict the cached one
         this.chunkFeatureCache = new quick_lru_1.default({ maxSize: 100 });
         this.renameRefSeq = renameRefSeqs;
+        this.RecordClass = (recordClass ?? record_ts_1.default);
         if (bamFilehandle) {
             this.bam = bamFilehandle;
         }
@@ -304,7 +305,7 @@ class BamFile {
                 pos--;
             }
             if (blockEnd < ba.length) {
-                const feature = new record_ts_1.default({
+                const feature = new this.RecordClass({
                     bytes: {
                         byteArray: ba,
                         start: blockStart,

package/dist/bamFile.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/dist/index.d.ts CHANGED Viewed

@@ -1,5 +1,5 @@
 export { default as BAI } from './bai.ts';
-export { default as BamFile } from './bamFile.ts';
+export { type BamRecordClass, type BamRecordLike, default as BamFile, } from './bamFile.ts';
 export { default as CSI } from './csi.ts';
-export { default as BamRecord } from './record.ts';
+export { type Bytes, default as BamRecord } from './record.ts';
 export { default as HtsgetFile } from './htsget.ts';

package/dist/index.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":";;;;;;AAAA,mCAAyC;AAAhC,8GAAA,OAAO,OAAO;AACvB,~~2CAAiD~~;~~AAAxC~~,sHAAA,OAAO,OAAW;~~AAC3B~~,mCAAyC;AAAhC,8GAAA,OAAO,OAAO;AACvB,~~yCAAkD~~;AAAzC,uHAAA,OAAO,OAAa;~~AAC7B~~,yCAAmD;AAA1C,wHAAA,OAAO,OAAc"}
1	+ {"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":";;;;;;AAAA,mCAAyC;AAAhC,8GAAA,OAAO,OAAO;AACvB,2CAIqB;AADnB,sHAAA,OAAO,OAAW;AAEpB,mCAAyC;AAAhC,8GAAA,OAAO,OAAO;AACvB,yCAA8D;AAAzC,uHAAA,OAAO,OAAa;AACzC,yCAAmD;AAA1C,wHAAA,OAAO,OAAc"}

package/dist/record.d.ts CHANGED Viewed

@@ -1,4 +1,4 @@
-interface Bytes {
+export interface Bytes {
     start: number;
     end: number;
     byteArray: Uint8Array;

package/esm/bamFile.d.ts CHANGED Viewed

@@ -3,10 +3,24 @@ import BAI from './bai.ts';
 import Chunk from './chunk.ts';
 import CSI from './csi.ts';
 import BAMFeature from './record.ts';
+import type { Bytes } from './record.ts';
 import type { BamOpts, BaseOpts } from './util.ts';
 import type { GenericFilehandle } from 'generic-filehandle2';
+export interface BamRecordLike {
+    ref_id: number;
+    start: number;
+    end: number;
+    name: string;
+    id: number;
+    next_pos: number;
+    next_refid: number;
+}
+export type BamRecordClass<T extends BamRecordLike = BAMFeature> = new (args: {
+    bytes: Bytes;
+    fileOffset: number;
+}) => T;
 export declare const BAM_MAGIC = 21840194;
-export default class BamFile {
+export default class BamFile<T extends BamRecordLike = BAMFeature> {
     renameRefSeq: (a: string) => string;
     bam: GenericFilehandle;
     header?: string;
@@ -17,7 +31,7 @@ export default class BamFile {
     }[];
     index?: BAI | CSI;
     htsget: boolean;
-    headerP?: ReturnType<BamFile['getHeaderPre']>;
+    headerP?: ReturnType<BamFile<T>['getHeaderPre']>;
     cache: QuickLRU<string, {
         bytesRead: number;
         buffer: Uint8Array;
@@ -26,9 +40,10 @@ export default class BamFile {
     chunkFeatureCache: QuickLRU<string, {
         minBlock: number;
         maxBlock: number;
-        features: BAMFeature[];
+        features: T[];
     }>;
-    constructor({ bamFilehandle, bamPath, bamUrl, baiPath, baiFilehandle, baiUrl, csiPath, csiFilehandle, csiUrl, htsget, renameRefSeqs, }: {
+    private RecordClass;
+    constructor({ bamFilehandle, bamPath, bamUrl, baiPath, baiFilehandle, baiUrl, csiPath, csiFilehandle, csiUrl, htsget, renameRefSeqs, recordClass, }: {
         bamFilehandle?: GenericFilehandle;
         bamPath?: string;
         bamUrl?: string;
@@ -40,6 +55,7 @@ export default class BamFile {
         csiUrl?: string;
         renameRefSeqs?: (a: string) => string;
         htsget?: boolean;
+        recordClass?: BamRecordClass<T>;
     });
     getHeaderPre(origOpts?: BaseOpts): Promise<{
         tag: string;
@@ -63,13 +79,13 @@ export default class BamFile {
             length: number;
         }[];
     };
-    getRecordsForRange(chr: string, min: number, max: number, opts?: BamOpts): Promise<BAMFeature[]>;
-    streamRecordsForRange(chr: string, min: number, max: number, opts?: BamOpts): AsyncGenerator<BAMFeature[], void, unknown>;
+    getRecordsForRange(chr: string, min: number, max: number, opts?: BamOpts): Promise<T[]>;
+    streamRecordsForRange(chr: string, min: number, max: number, opts?: BamOpts): AsyncGenerator<T[], void, unknown>;
     private chunkCacheKey;
     private blocksOverlap;
     private evictOverlappingChunks;
-    _fetchChunkFeatures(chunks: Chunk[], chrId: number, min: number, max: number, opts?: BamOpts): AsyncGenerator<BAMFeature[], void, unknown>;
-    fetchPairs(chrId: number, feats: BAMFeature[][], opts: BamOpts): Promise<BAMFeature[]>;
+    _fetchChunkFeatures(chunks: Chunk[], chrId: number, min: number, max: number, opts?: BamOpts): AsyncGenerator<T[], void, unknown>;
+    fetchPairs(chrId: number, feats: T[][], opts: BamOpts): Promise<T[]>;
     _readChunk({ chunk, opts }: {
         chunk: Chunk;
         opts: BaseOpts;
@@ -79,7 +95,7 @@ export default class BamFile {
         dpositions: number[];
         chunk: Chunk;
     }>;
-    readBamFeatures(ba: Uint8Array, cpositions: number[], dpositions: number[], chunk: Chunk): Promise<BAMFeature[]>;
+    readBamFeatures(ba: Uint8Array, cpositions: number[], dpositions: number[], chunk: Chunk): Promise<T[]>;
     _shouldIncludeFeature(dataView: DataView, blockStart: number, chrId: number, max: number): boolean;
     hasRefSeq(seqName: string): Promise<boolean | undefined>;
     lineCount(seqName: string): Promise<number>;

package/esm/bamFile.js CHANGED Viewed

@@ -11,7 +11,7 @@ import { gen2array, makeOpts } from "./util.js";
 export const BAM_MAGIC = 21840194;
 const blockLen = 1 << 16;
 export default class BamFile {
-    constructor({ bamFilehandle, bamPath, bamUrl, baiPath, baiFilehandle, baiUrl, csiPath, csiFilehandle, csiUrl, htsget, renameRefSeqs = n => n, }) {
+    constructor({ bamFilehandle, bamPath, bamUrl, baiPath, baiFilehandle, baiUrl, csiPath, csiFilehandle, csiUrl, htsget, renameRefSeqs = n => n, recordClass, }) {
         this.htsget = false;
         this.cache = new QuickLRU({
             maxSize: 1000,
@@ -20,6 +20,7 @@ export default class BamFile {
         // When a new chunk overlaps a cached chunk, we evict the cached one
         this.chunkFeatureCache = new QuickLRU({ maxSize: 100 });
         this.renameRefSeq = renameRefSeqs;
+        this.RecordClass = (recordClass ?? BAMFeature);
         if (bamFilehandle) {
             this.bam = bamFilehandle;
         }
@@ -298,7 +299,7 @@ export default class BamFile {
                 pos--;
             }
             if (blockEnd < ba.length) {
-                const feature = new BAMFeature({
+                const feature = new this.RecordClass({
                     bytes: {
                         byteArray: ba,
                         start: blockStart,

package/esm/bamFile.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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package/esm/index.d.ts CHANGED Viewed

@@ -1,5 +1,5 @@
 export { default as BAI } from './bai.ts';
-export { default as BamFile } from './bamFile.ts';
+export { type BamRecordClass, type BamRecordLike, default as BamFile, } from './bamFile.ts';
 export { default as CSI } from './csi.ts';
-export { default as BamRecord } from './record.ts';
+export { type Bytes, default as BamRecord } from './record.ts';
 export { default as HtsgetFile } from './htsget.ts';

package/esm/index.js CHANGED Viewed

@@ -1,5 +1,5 @@
 export { default as BAI } from "./bai.js";
-export { default as BamFile } from "./bamFile.js";
+export { default as BamFile, } from "./bamFile.js";
 export { default as CSI } from "./csi.js";
 export { default as BamRecord } from "./record.js";
 export { default as HtsgetFile } from "./htsget.js";

package/esm/index.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,OAAO,IAAI,GAAG,EAAE,MAAM,UAAU,CAAA;AACzC,OAAO,~~EAAE~~,OAAO,IAAI,OAAO,~~EAAE~~,MAAM,cAAc,CAAA;~~AACjD~~,OAAO,EAAE,OAAO,IAAI,GAAG,EAAE,MAAM,UAAU,CAAA;AACzC,OAAO,~~EAAE~~,OAAO,IAAI,SAAS,EAAE,MAAM,aAAa,CAAA;~~AAClD~~,OAAO,EAAE,OAAO,IAAI,UAAU,EAAE,MAAM,aAAa,CAAA"}
1	+ {"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,OAAO,IAAI,GAAG,EAAE,MAAM,UAAU,CAAA;AACzC,OAAO,EAGL,OAAO,IAAI,OAAO,GACnB,MAAM,cAAc,CAAA;AACrB,OAAO,EAAE,OAAO,IAAI,GAAG,EAAE,MAAM,UAAU,CAAA;AACzC,OAAO,EAAc,OAAO,IAAI,SAAS,EAAE,MAAM,aAAa,CAAA;AAC9D,OAAO,EAAE,OAAO,IAAI,UAAU,EAAE,MAAM,aAAa,CAAA"}

package/esm/record.d.ts CHANGED Viewed

@@ -1,4 +1,4 @@
-interface Bytes {
+export interface Bytes {
     start: number;
     end: number;
     byteArray: Uint8Array;

package/package.json CHANGED Viewed

@@ -1,6 +1,6 @@
 {
   "name": "@gmod/bam",
-  "version": "7.1.5",
+  "version": "7.1.6",
   "description": "Parser for BAM and BAM index (bai) files",
   "license": "MIT",
   "repository": "GMOD/bam-js",

package/src/bamFile.ts CHANGED Viewed

@@ -11,14 +11,30 @@ import BAMFeature from './record.ts'
 import { parseHeaderText } from './sam.ts'
 import { gen2array, makeOpts } from './util.ts'
+import type { Bytes } from './record.ts'
 import type { BamOpts, BaseOpts } from './util.ts'
 import type { GenericFilehandle } from 'generic-filehandle2'
+export interface BamRecordLike {
+  ref_id: number
+  start: number
+  end: number
+  name: string
+  id: number
+  next_pos: number
+  next_refid: number
+}
+export type BamRecordClass<T extends BamRecordLike = BAMFeature> = new (args: {
+  bytes: Bytes
+  fileOffset: number
+}) => T
 export const BAM_MAGIC = 21840194
 const blockLen = 1 << 16
-export default class BamFile {
+export default class BamFile<T extends BamRecordLike = BAMFeature> {
   public renameRefSeq: (a: string) => string
   public bam: GenericFilehandle
   public header?: string
@@ -26,7 +42,7 @@ export default class BamFile {
   public indexToChr?: { refName: string; length: number }[]
   public index?: BAI | CSI
   public htsget = false
-  public headerP?: ReturnType<BamFile['getHeaderPre']>
+  public headerP?: ReturnType<BamFile<T>['getHeaderPre']>
   public cache = new QuickLRU<
     string,
     { bytesRead: number; buffer: Uint8Array; nextIn: number }
@@ -38,9 +54,11 @@ export default class BamFile {
   // When a new chunk overlaps a cached chunk, we evict the cached one
   public chunkFeatureCache = new QuickLRU<
     string,
-    { minBlock: number; maxBlock: number; features: BAMFeature[] }
+    { minBlock: number; maxBlock: number; features: T[] }
   >({ maxSize: 100 })
+  private RecordClass: BamRecordClass<T>
   constructor({
     bamFilehandle,
     bamPath,
@@ -53,6 +71,7 @@ export default class BamFile {
     csiUrl,
     htsget,
     renameRefSeqs = n => n,
+    recordClass,
   }: {
     bamFilehandle?: GenericFilehandle
     bamPath?: string
@@ -65,8 +84,10 @@ export default class BamFile {
     csiUrl?: string
     renameRefSeqs?: (a: string) => string
     htsget?: boolean
+    recordClass?: BamRecordClass<T>
   }) {
     this.renameRefSeq = renameRefSeqs
+    this.RecordClass = (recordClass ?? BAMFeature) as BamRecordClass<T>
     if (bamFilehandle) {
       this.bam = bamFilehandle
@@ -252,7 +273,7 @@ export default class BamFile {
     opts: BamOpts = {},
   ) {
     const { viewAsPairs } = opts
-    const feats = [] as BAMFeature[][]
+    const feats = [] as T[][]
     let done = false
     // let cacheHits = 0
     // let cacheMisses = 0
@@ -262,7 +283,7 @@ export default class BamFile {
       const minBlock = chunk.minv.blockPosition
       const maxBlock = chunk.maxv.blockPosition
-      let records: BAMFeature[]
+      let records: T[]
       const cached = this.chunkFeatureCache.get(cacheKey)
       if (cached) {
         records = cached.features
@@ -287,7 +308,7 @@ export default class BamFile {
         // cacheMisses++
       }
-      const recs = [] as BAMFeature[]
+      const recs = [] as T[]
       for (const feature of records) {
         if (feature.ref_id === chrId) {
           if (feature.start >= max) {
@@ -318,7 +339,7 @@ export default class BamFile {
     }
   }
-  async fetchPairs(chrId: number, feats: BAMFeature[][], opts: BamOpts) {
+  async fetchPairs(chrId: number, feats: T[][], opts: BamOpts) {
     const { pairAcrossChr, maxInsertSize = 200000 } = opts
     const unmatedPairs: Record<string, boolean> = {}
     const readIds: Record<string, number> = {}
@@ -376,7 +397,7 @@ export default class BamFile {
           chunk: c,
           opts,
         })
-        const mateRecs = [] as BAMFeature[]
+        const mateRecs = [] as T[]
         for (const feature of await this.readBamFeatures(
           data,
           cpositions,
@@ -415,7 +436,7 @@ export default class BamFile {
     chunk: Chunk,
   ) {
     let blockStart = 0
-    const sink = [] as BAMFeature[]
+    const sink = [] as T[]
     let pos = 0
     const dataView = new DataView(ba.buffer)
@@ -432,7 +453,7 @@ export default class BamFile {
       }
       if (blockEnd < ba.length) {
-        const feature = new BAMFeature({
+        const feature = new this.RecordClass({
           bytes: {
             byteArray: ba,
             start: blockStart,

package/src/index.ts CHANGED Viewed

@@ -1,5 +1,9 @@
 export { default as BAI } from './bai.ts'
-export { default as BamFile } from './bamFile.ts'
+export {
+  type BamRecordClass,
+  type BamRecordLike,
+  default as BamFile,
+} from './bamFile.ts'
 export { default as CSI } from './csi.ts'
-export { default as BamRecord } from './record.ts'
+export { type Bytes, default as BamRecord } from './record.ts'
 export { default as HtsgetFile } from './htsget.ts'

package/src/record.ts CHANGED Viewed

@@ -15,7 +15,7 @@ const ASCII_CIGAR_CODES = [
 const CIGAR_SKIP_MASK =
   (1 << CIGAR_INS) | (1 << CIGAR_SOFT_CLIP) | (1 << CIGAR_HARD_CLIP)
-interface Bytes {
+export interface Bytes {
   start: number
   end: number
   byteArray: Uint8Array