@gmod/bam 6.1.0 → 6.1.1

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.
Files changed (9) hide show
  1. package/CHANGELOG.md +4 -0
  2. package/dist/record.d.ts +1 -0
  3. package/dist/record.js +12 -0
  4. package/dist/record.js.map +1 -1
  5. package/esm/record.d.ts +1 -0
  6. package/esm/record.js +12 -0
  7. package/esm/record.js.map +1 -1
  8. package/package.json +1 -1
  9. package/src/record.ts +16 -0
package/CHANGELOG.md CHANGED
@@ -1,3 +1,7 @@
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+ ## [6.1.1](https://github.com/GMOD/bam-js/compare/v6.1.0...v6.1.1) (2025-10-02)
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+
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+
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  # [6.1.0](https://github.com/GMOD/bam-js/compare/v6.0.4...v6.1.0) (2025-10-01)
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package/dist/record.d.ts CHANGED
@@ -68,6 +68,7 @@ export default class BamRecord {
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  get next_refid(): number;
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  get next_pos(): number;
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  get template_length(): number;
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+ seqAt(idx: number): string | undefined;
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  toJSON(): Record<string, any>;
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  }
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  export {};
package/dist/record.js CHANGED
@@ -411,6 +411,18 @@ class BamRecord {
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  get template_length() {
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  return __classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt32(this.bytes.start + 32, true);
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  }
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+ seqAt(idx) {
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+ if (idx < this.seq_length) {
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+ const byteIndex = idx >> 1;
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+ const sb = this.byteArray[this.b0 + this.read_name_length + this.num_cigar_ops * 4 + byteIndex];
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+ return idx % 2 === 0
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+ ? SEQRET_DECODER[(sb & 0xf0) >> 4]
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+ : SEQRET_DECODER[sb & 0x0f];
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+ }
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+ else {
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+ return undefined;
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+ }
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+ }
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  toJSON() {
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  const data = {};
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  for (const k of Object.keys(this)) {
package/dist/record.js.map CHANGED
@@ -1 +1 @@
1
- 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package/esm/record.d.ts CHANGED
@@ -68,6 +68,7 @@ export default class BamRecord {
68
68
  get next_refid(): number;
69
69
  get next_pos(): number;
70
70
  get template_length(): number;
71
+ seqAt(idx: number): string | undefined;
71
72
  toJSON(): Record<string, any>;
72
73
  }
73
74
  export {};
package/esm/record.js CHANGED
@@ -406,6 +406,18 @@ class BamRecord {
406
406
  get template_length() {
407
407
  return __classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt32(this.bytes.start + 32, true);
408
408
  }
409
+ seqAt(idx) {
410
+ if (idx < this.seq_length) {
411
+ const byteIndex = idx >> 1;
412
+ const sb = this.byteArray[this.b0 + this.read_name_length + this.num_cigar_ops * 4 + byteIndex];
413
+ return idx % 2 === 0
414
+ ? SEQRET_DECODER[(sb & 0xf0) >> 4]
415
+ : SEQRET_DECODER[sb & 0x0f];
416
+ }
417
+ else {
418
+ return undefined;
419
+ }
420
+ }
409
421
  toJSON() {
410
422
  const data = {};
411
423
  for (const k of Object.keys(this)) {
package/esm/record.js.map CHANGED
@@ -1 +1 @@
1
- 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package/package.json CHANGED
@@ -1,6 +1,6 @@
1
1
  {
2
2
  "name": "@gmod/bam",
3
- "version": "6.1.0",
3
+ "version": "6.1.1",
4
4
  "description": "Parser for BAM and BAM index (bai) files",
5
5
  "license": "MIT",
6
6
  "repository": "GMOD/bam-js",
package/src/record.ts CHANGED
@@ -438,6 +438,22 @@ export default class BamRecord {
438
438
  return this.#dataView.getInt32(this.bytes.start + 32, true)
439
439
  }
440
440
 
441
+ seqAt(idx: number): string | undefined {
442
+ if (idx < this.seq_length) {
443
+ const byteIndex = idx >> 1
444
+ const sb =
445
+ this.byteArray[
446
+ this.b0 + this.read_name_length + this.num_cigar_ops * 4 + byteIndex
447
+ ]!
448
+
449
+ return idx % 2 === 0
450
+ ? SEQRET_DECODER[(sb & 0xf0) >> 4]
451
+ : SEQRET_DECODER[sb & 0x0f]
452
+ } else {
453
+ return undefined
454
+ }
455
+ }
456
+
441
457
  toJSON() {
442
458
  const data: Record<string, any> = {}
443
459
  for (const k of Object.keys(this)) {