npm - @gmod/cram - Versions diffs - 3.0.7 → 4.0.0 - Mend

@gmod/cram 3.0.7 → 4.0.0

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.

Files changed (268) hide show

package/dist/craiIndex.js +70 -87
package/dist/craiIndex.js.map +1 -1
package/dist/cram-bundle.js +1 -1
package/dist/cramFile/codecs/_base.d.ts +1 -1
package/dist/cramFile/codecs/beta.d.ts +2 -2
package/dist/cramFile/codecs/beta.js +1 -1
package/dist/cramFile/codecs/beta.js.map +1 -1
package/dist/cramFile/codecs/byteArrayLength.d.ts +2 -2
package/dist/cramFile/codecs/byteArrayStop.d.ts +4 -4
package/dist/cramFile/codecs/byteArrayStop.js +1 -1
package/dist/cramFile/codecs/byteArrayStop.js.map +1 -1
package/dist/cramFile/codecs/external.d.ts +1 -1
package/dist/cramFile/codecs/external.js +1 -1
package/dist/cramFile/codecs/external.js.map +1 -1
package/dist/cramFile/codecs/gamma.d.ts +1 -1
package/dist/cramFile/codecs/gamma.js +1 -1
package/dist/cramFile/codecs/gamma.js.map +1 -1
package/dist/cramFile/codecs/getBits.d.ts +1 -1
package/dist/cramFile/codecs/getBits.js.map +1 -1
package/dist/cramFile/codecs/huffman.d.ts +1 -1
package/dist/cramFile/codecs/huffman.js +1 -1
package/dist/cramFile/codecs/huffman.js.map +1 -1
package/dist/cramFile/codecs/index.d.ts +1 -1
package/dist/cramFile/codecs/index.js +5 -5
package/dist/cramFile/codecs/index.js.map +1 -1
package/dist/cramFile/codecs/subexp.d.ts +2 -2
package/dist/cramFile/codecs/subexp.js +1 -1
package/dist/cramFile/codecs/subexp.js.map +1 -1
package/dist/cramFile/container/compressionScheme.d.ts +2 -2
package/dist/cramFile/container/compressionScheme.js +1 -1
package/dist/cramFile/container/compressionScheme.js.map +1 -1
package/dist/cramFile/container/index.d.ts +1 -2
package/dist/cramFile/container/index.js +62 -79
package/dist/cramFile/container/index.js.map +1 -1
package/dist/cramFile/file.d.ts +9 -13
package/dist/cramFile/file.js +218 -247
package/dist/cramFile/file.js.map +1 -1
package/dist/cramFile/record.js +2 -2
package/dist/cramFile/record.js.map +1 -1
package/dist/cramFile/sectionParsers.d.ts +16 -16
package/dist/cramFile/sectionParsers.js +12 -9
package/dist/cramFile/sectionParsers.js.map +1 -1
package/dist/cramFile/slice/decodeRecord.d.ts +3 -3
package/dist/cramFile/slice/decodeRecord.js +11 -11
package/dist/cramFile/slice/decodeRecord.js.map +1 -1
package/dist/cramFile/slice/index.d.ts +2 -2
package/dist/cramFile/slice/index.js +241 -262
package/dist/cramFile/slice/index.js.map +1 -1
package/dist/cramFile/util.d.ts +4 -2
package/dist/cramFile/util.js +29 -6
package/dist/cramFile/util.js.map +1 -1
package/dist/htscodecs/arith_gen.d.ts +9 -17
package/dist/htscodecs/arith_gen.js +32 -272
package/dist/htscodecs/arith_gen.js.map +1 -1
package/dist/htscodecs/fqzcomp.d.ts +1 -2
package/dist/htscodecs/fqzcomp.js +2 -421
package/dist/htscodecs/fqzcomp.js.map +1 -1
package/dist/htscodecs/index.d.ts +5 -5
package/dist/htscodecs/index.js +10 -10
package/dist/htscodecs/index.js.map +1 -1
package/dist/htscodecs/iostream.d.ts +2 -1
package/dist/htscodecs/iostream.js +3 -2
package/dist/htscodecs/iostream.js.map +1 -1
package/dist/htscodecs/rans.d.ts +1 -2
package/dist/htscodecs/rans.js +3 -270
package/dist/htscodecs/rans.js.map +1 -1
package/dist/htscodecs/rans4x16.d.ts +0 -1
package/dist/htscodecs/rans4x16.js +6 -497
package/dist/htscodecs/rans4x16.js.map +1 -1
package/dist/htscodecs/tok3.js +17 -1
package/dist/htscodecs/tok3.js.map +1 -1
package/dist/index.d.ts +1 -1
package/dist/index.js +2 -2
package/dist/index.js.map +1 -1
package/dist/indexedCramFile.d.ts +4 -4
package/dist/indexedCramFile.js +97 -108
package/dist/indexedCramFile.js.map +1 -1
package/dist/io/index.d.ts +2 -2
package/dist/io/index.js +6 -6
package/dist/io/index.js.map +1 -1
package/dist/rans/constants.d.ts +1 -1
package/dist/rans/constants.js +1 -1
package/dist/rans/constants.js.map +1 -1
package/dist/rans/d04.js.map +1 -1
package/dist/rans/decoding.js.map +1 -1
package/dist/rans/frequencies.js.map +1 -1
package/dist/rans/index.js +5 -5
package/dist/rans/index.js.map +1 -1
package/dist/unzip.d.ts +1 -1
package/dist/unzip.js +5 -3
package/dist/unzip.js.map +1 -1
package/esm/craiIndex.js +10 -12
package/esm/craiIndex.js.map +1 -1
package/esm/cramFile/codecs/_base.d.ts +1 -1
package/esm/cramFile/codecs/beta.d.ts +2 -2
package/esm/cramFile/codecs/beta.js +1 -1
package/esm/cramFile/codecs/beta.js.map +1 -1
package/esm/cramFile/codecs/byteArrayLength.d.ts +2 -2
package/esm/cramFile/codecs/byteArrayStop.d.ts +4 -4
package/esm/cramFile/codecs/byteArrayStop.js +1 -1
package/esm/cramFile/codecs/byteArrayStop.js.map +1 -1
package/esm/cramFile/codecs/external.d.ts +1 -1
package/esm/cramFile/codecs/external.js +1 -1
package/esm/cramFile/codecs/external.js.map +1 -1
package/esm/cramFile/codecs/gamma.d.ts +1 -1
package/esm/cramFile/codecs/gamma.js +1 -1
package/esm/cramFile/codecs/gamma.js.map +1 -1
package/esm/cramFile/codecs/getBits.d.ts +1 -1
package/esm/cramFile/codecs/getBits.js.map +1 -1
package/esm/cramFile/codecs/huffman.d.ts +1 -1
package/esm/cramFile/codecs/huffman.js +1 -1
package/esm/cramFile/codecs/huffman.js.map +1 -1
package/esm/cramFile/codecs/index.d.ts +1 -1
package/esm/cramFile/codecs/index.js +5 -5
package/esm/cramFile/codecs/index.js.map +1 -1
package/esm/cramFile/codecs/subexp.d.ts +2 -2
package/esm/cramFile/codecs/subexp.js +1 -1
package/esm/cramFile/codecs/subexp.js.map +1 -1
package/esm/cramFile/container/compressionScheme.d.ts +2 -2
package/esm/cramFile/container/compressionScheme.js +1 -1
package/esm/cramFile/container/compressionScheme.js.map +1 -1
package/esm/cramFile/container/index.d.ts +1 -2
package/esm/cramFile/container/index.js +4 -7
package/esm/cramFile/container/index.js.map +1 -1
package/esm/cramFile/file.d.ts +9 -13
package/esm/cramFile/file.js +47 -52
package/esm/cramFile/file.js.map +1 -1
package/esm/cramFile/record.js +2 -2
package/esm/cramFile/record.js.map +1 -1
package/esm/cramFile/sectionParsers.d.ts +16 -16
package/esm/cramFile/sectionParsers.js +7 -7
package/esm/cramFile/sectionParsers.js.map +1 -1
package/esm/cramFile/slice/decodeRecord.d.ts +3 -3
package/esm/cramFile/slice/decodeRecord.js +11 -11
package/esm/cramFile/slice/decodeRecord.js.map +1 -1
package/esm/cramFile/slice/index.d.ts +2 -2
package/esm/cramFile/slice/index.js +7 -6
package/esm/cramFile/slice/index.js.map +1 -1
package/esm/cramFile/util.d.ts +4 -2
package/esm/cramFile/util.js +19 -2
package/esm/cramFile/util.js.map +1 -1
package/esm/htscodecs/arith_gen.d.ts +9 -17
package/esm/htscodecs/arith_gen.js +32 -272
package/esm/htscodecs/arith_gen.js.map +1 -1
package/esm/htscodecs/fqzcomp.d.ts +1 -2
package/esm/htscodecs/fqzcomp.js +2 -421
package/esm/htscodecs/fqzcomp.js.map +1 -1
package/esm/htscodecs/index.d.ts +5 -5
package/esm/htscodecs/index.js +10 -10
package/esm/htscodecs/index.js.map +1 -1
package/esm/htscodecs/iostream.d.ts +2 -1
package/esm/htscodecs/iostream.js +3 -2
package/esm/htscodecs/iostream.js.map +1 -1
package/esm/htscodecs/rans.d.ts +1 -2
package/esm/htscodecs/rans.js +3 -270
package/esm/htscodecs/rans.js.map +1 -1
package/esm/htscodecs/rans4x16.d.ts +0 -1
package/esm/htscodecs/rans4x16.js +6 -497
package/esm/htscodecs/rans4x16.js.map +1 -1
package/esm/htscodecs/tok3.js +17 -1
package/esm/htscodecs/tok3.js.map +1 -1
package/esm/index.d.ts +1 -1
package/esm/index.js +1 -1
package/esm/index.js.map +1 -1
package/esm/indexedCramFile.d.ts +4 -4
package/esm/indexedCramFile.js +10 -10
package/esm/indexedCramFile.js.map +1 -1
package/esm/io/index.d.ts +2 -2
package/esm/io/index.js +1 -1
package/esm/io/index.js.map +1 -1
package/esm/rans/constants.d.ts +1 -1
package/esm/rans/constants.js +1 -1
package/esm/rans/constants.js.map +1 -1
package/esm/rans/d04.js.map +1 -1
package/esm/rans/decoding.js.map +1 -1
package/esm/rans/frequencies.js.map +1 -1
package/esm/rans/index.js +5 -5
package/esm/rans/index.js.map +1 -1
package/esm/unzip.d.ts +1 -1
package/esm/unzip.js +4 -1
package/esm/unzip.js.map +1 -1
package/package.json +7 -9
package/src/craiIndex.ts +17 -16
package/src/cramFile/codecs/_base.ts +1 -1
package/src/cramFile/codecs/beta.ts +3 -3
package/src/cramFile/codecs/byteArrayLength.ts +1 -1
package/src/cramFile/codecs/byteArrayStop.ts +3 -4
package/src/cramFile/codecs/external.ts +3 -3
package/src/cramFile/codecs/gamma.ts +2 -2
package/src/cramFile/codecs/getBits.ts +1 -1
package/src/cramFile/codecs/huffman.ts +2 -3
package/src/cramFile/codecs/index.ts +7 -8
package/src/cramFile/codecs/subexp.ts +3 -3
package/src/cramFile/container/compressionScheme.ts +3 -3
package/src/cramFile/container/index.ts +7 -10
package/src/cramFile/file.ts +71 -77
package/src/cramFile/record.ts +3 -3
package/src/cramFile/sectionParsers.ts +27 -22
package/src/cramFile/slice/decodeRecord.ts +17 -17
package/src/cramFile/slice/index.ts +8 -9
package/src/cramFile/util.ts +24 -5
package/src/htscodecs/arith_gen.js +33 -296
package/src/htscodecs/fqzcomp.js +2 -476
package/src/htscodecs/index.js +9 -11
package/src/htscodecs/iostream.js +3 -2
package/src/htscodecs/rans.js +3 -315
package/src/htscodecs/rans4x16.js +6 -557
package/src/htscodecs/tok3.js +18 -1
package/src/index.ts +1 -1
package/src/indexedCramFile.ts +6 -5
package/src/io/index.ts +5 -4
package/src/rans/constants.ts +1 -1
package/src/rans/d04.ts +0 -1
package/src/rans/decoding.ts +0 -1
package/src/rans/frequencies.ts +0 -1
package/src/rans/index.ts +5 -7
package/src/unzip.ts +5 -1
package/dist/cramFile/filehandle.d.ts +0 -1
package/dist/cramFile/filehandle.js +0 -3
package/dist/cramFile/filehandle.js.map +0 -1
package/dist/htscodecs/main_arith_gen.d.ts +0 -1
package/dist/htscodecs/main_arith_gen.js +0 -86
package/dist/htscodecs/main_arith_gen.js.map +0 -1
package/dist/htscodecs/main_fqzcomp.d.ts +0 -1
package/dist/htscodecs/main_fqzcomp.js +0 -112
package/dist/htscodecs/main_fqzcomp.js.map +0 -1
package/dist/htscodecs/main_rans.d.ts +0 -1
package/dist/htscodecs/main_rans.js +0 -83
package/dist/htscodecs/main_rans.js.map +0 -1
package/dist/htscodecs/main_rans4x16.d.ts +0 -1
package/dist/htscodecs/main_rans4x16.js +0 -82
package/dist/htscodecs/main_rans4x16.js.map +0 -1
package/dist/htscodecs/main_tok3.d.ts +0 -1
package/dist/htscodecs/main_tok3.js +0 -84
package/dist/htscodecs/main_tok3.js.map +0 -1
package/dist/unzip-pako.d.ts +0 -2
package/dist/unzip-pako.js +0 -9
package/dist/unzip-pako.js.map +0 -1
package/esm/cramFile/filehandle.d.ts +0 -1
package/esm/cramFile/filehandle.js +0 -2
package/esm/cramFile/filehandle.js.map +0 -1
package/esm/htscodecs/main_arith_gen.d.ts +0 -1
package/esm/htscodecs/main_arith_gen.js +0 -86
package/esm/htscodecs/main_arith_gen.js.map +0 -1
package/esm/htscodecs/main_fqzcomp.d.ts +0 -1
package/esm/htscodecs/main_fqzcomp.js +0 -112
package/esm/htscodecs/main_fqzcomp.js.map +0 -1
package/esm/htscodecs/main_rans.d.ts +0 -1
package/esm/htscodecs/main_rans.js +0 -83
package/esm/htscodecs/main_rans.js.map +0 -1
package/esm/htscodecs/main_rans4x16.d.ts +0 -1
package/esm/htscodecs/main_rans4x16.js +0 -82
package/esm/htscodecs/main_rans4x16.js.map +0 -1
package/esm/htscodecs/main_tok3.d.ts +0 -1
package/esm/htscodecs/main_tok3.js +0 -84
package/esm/htscodecs/main_tok3.js.map +0 -1
package/esm/unzip-pako.d.ts +0 -2
package/esm/unzip-pako.js +0 -6
package/esm/unzip-pako.js.map +0 -1
package/src/cramFile/filehandle.ts +0 -1
package/src/htscodecs/Makefile +0 -142
package/src/htscodecs/README.md +0 -64
package/src/htscodecs/main_arith_gen.js +0 -96
package/src/htscodecs/main_fqzcomp.js +0 -113
package/src/htscodecs/main_rans.js +0 -88
package/src/htscodecs/main_rans4x16.js +0 -87
package/src/htscodecs/main_tok3.js +0 -86
package/src/unzip-pako.ts +0 -6

package/esm/htscodecs/rans4x16.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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package/esm/htscodecs/tok3.js CHANGED Viewed

@@ -39,6 +39,22 @@
 const IOStream = require('./iostream');
 const rans = require('./rans4x16');
 const arith_gen = require('./arith_gen');
+function sum(array) {
+    let sum = 0;
+    for (const entry of array) {
+        sum += entry.length;
+    }
+    return sum;
+}
+function concatUint8Array(args) {
+    const mergedArray = new Uint8Array(sum(args));
+    let offset = 0;
+    for (const entry of args) {
+        mergedArray.set(entry, offset);
+        offset += entry.length;
+    }
+    return mergedArray;
+}
 var arith = new arith_gen();
 const TOK_TYPE = 0;
 const TOK_STRING = 1;
@@ -69,7 +85,7 @@ function DecodeTokenByteStreams(src, in_size, use_arith, nnames) {
         }
         if (type != TOK_TYPE && tok_new) {
             var M = new Array(nnames - 1).fill(TOK_MATCH);
-            B[t][TOK_TYPE] = new IOStream(Buffer.from([type].concat(M)));
+            B[t][TOK_TYPE] = new IOStream(concatUint8Array([new Uint8Array(type), M]));
         }
         if (tok_dup) {
             var dup_pos = src.ReadByte();

package/esm/htscodecs/tok3.js.map CHANGED Viewed

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

@@ -1,3 +1,3 @@
-export { default as CramFile, CramRecord } from './cramFile';
+export { CramRecord, default as CramFile } from './cramFile';
 export { default as CraiIndex } from './craiIndex';
 export { default as IndexedCramFile } from './indexedCramFile';

package/esm/index.js CHANGED Viewed

@@ -1,4 +1,4 @@
-export { default as CramFile, CramRecord } from './cramFile';
+export { CramRecord, default as CramFile } from './cramFile';
 export { default as CraiIndex } from './craiIndex';
 export { default as IndexedCramFile } from './indexedCramFile';
 //# sourceMappingURL=index.js.map

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,QAAQ,EAAE,~~UAAU,EAAE,~~MAAM,YAAY,CAAA;AAC5D,OAAO,EAAE,OAAO,IAAI,SAAS,EAAE,MAAM,aAAa,CAAA;AAClD,OAAO,EAAE,OAAO,IAAI,eAAe,EAAE,MAAM,mBAAmB,CAAA"}
1	+ {"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,UAAU,EAAE,OAAO,IAAI,QAAQ,EAAE,MAAM,YAAY,CAAA;AAC5D,OAAO,EAAE,OAAO,IAAI,SAAS,EAAE,MAAM,aAAa,CAAA;AAClD,OAAO,EAAE,OAAO,IAAI,eAAe,EAAE,MAAM,mBAAmB,CAAA"}

package/esm/indexedCramFile.d.ts CHANGED Viewed

@@ -1,10 +1,10 @@
+import { Slice } from './craiIndex';
 import CramFile from './cramFile';
-import CramRecord from './cramFile/record';
 import { SeqFetch } from './cramFile/file';
-import { Filehandle } from './cramFile/filehandle';
-import { Slice } from './craiIndex';
+import CramRecord from './cramFile/record';
+import type { GenericFilehandle } from 'generic-filehandle2';
 export interface CramFileSource {
-    cramFilehandle?: Filehandle;
+    cramFilehandle?: GenericFilehandle;
     cramUrl?: string;
     cramPath?: string;
 }

package/esm/indexedCramFile.js CHANGED Viewed

@@ -1,5 +1,5 @@
-import { CramUnimplementedError } from './errors';
 import CramFile from './cramFile';
+import { CramUnimplementedError } from './errors';
 export default class IndexedCramFile {
     /**
      *
@@ -11,17 +11,17 @@ export default class IndexedCramFile {
      * checksum of the reference sequence underlying a slice. In some applications, this check can cause an inconvenient amount (many megabases) of sequences to be fetched.
      */
     constructor(args) {
-        var _a;
         // { cram, index, seqFetch /* fasta, fastaIndex */ }) {
         this.cram =
-            (_a = args.cram) !== null && _a !== void 0 ? _a : new CramFile({
-                url: args.cramUrl,
-                path: args.cramPath,
-                filehandle: args.cramFilehandle,
-                seqFetch: args.seqFetch,
-                checkSequenceMD5: args.checkSequenceMD5,
-                cacheSize: args.cacheSize,
-            });
+            args.cram ??
+                new CramFile({
+                    url: args.cramUrl,
+                    path: args.cramPath,
+                    filehandle: args.cramFilehandle,
+                    seqFetch: args.seqFetch,
+                    checkSequenceMD5: args.checkSequenceMD5,
+                    cacheSize: args.cacheSize,
+                });
         if (!(this.cram instanceof CramFile)) {
             throw new Error('invalid arguments: no cramfile');
         }

package/esm/indexedCramFile.js.map CHANGED Viewed

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

@@ -1,4 +1,4 @@
-import { Filehandle } from '../cramFile/filehandle';
-declare function open(maybeUrl?: string, maybePath?: string, maybeFilehandle?: Filehandle): Filehandle;
+import type { GenericFilehandle } from 'generic-filehandle2';
+declare function open(maybeUrl?: string, maybePath?: string, maybeFilehandle?: GenericFilehandle): GenericFilehandle;
 export { open };
 export { LocalFile, RemoteFile } from 'generic-filehandle';

package/esm/io/index.js CHANGED Viewed

@@ -1,4 +1,4 @@
-import { LocalFile, RemoteFile } from 'generic-filehandle';
+import { LocalFile, RemoteFile } from 'generic-filehandle2';
 function open(maybeUrl, maybePath, maybeFilehandle) {
     if (maybeFilehandle) {
         return maybeFilehandle;

package/esm/io/index.js.map CHANGED Viewed

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

@@ -1,4 +1,4 @@
 declare const TF_SHIFT = 12;
 declare const TOTFREQ: number;
 declare const RANS_BYTE_L: number;
-export { TF_SHIFT, TOTFREQ, RANS_BYTE_L };
+export { RANS_BYTE_L, TF_SHIFT, TOTFREQ };

package/esm/rans/constants.js CHANGED Viewed

@@ -1,5 +1,5 @@
 const TF_SHIFT = 12;
 const TOTFREQ = 1 << TF_SHIFT;
 const RANS_BYTE_L = 1 << 23;
-export { TF_SHIFT, TOTFREQ, RANS_BYTE_L };
+export { RANS_BYTE_L, TF_SHIFT, TOTFREQ };
 //# sourceMappingURL=constants.js.map

package/esm/rans/constants.js.map CHANGED Viewed

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package/esm/rans/index.js CHANGED Viewed

@@ -1,10 +1,9 @@
 // @ts-nocheck
-import { Buffer } from 'buffer';
 import { CramMalformedError } from '../errors';
-import Decoding from './decoding';
-import { readStatsO0, readStatsO1 } from './frequencies';
 import D04 from './d04';
 import D14 from './d14';
+import Decoding from './decoding';
+import { readStatsO0, readStatsO1 } from './frequencies';
 // const /* int */ ORDER_BYTE_LENGTH = 1
 // const /* int */ COMPRESSED_BYTE_LENGTH = 4
 const /* int */ RAW_BYTE_LENGTH = 4;
@@ -124,6 +123,7 @@ function uncompressOrder1Way4(
 class ByteBuffer {
     constructor(nodeBuffer, initialInputPosition = 0) {
         this._buffer = nodeBuffer;
+        this._dataView = new DataView(nodeBuffer.buffer);
         this._position = initialInputPosition;
         this.length = nodeBuffer.length;
     }
@@ -155,7 +155,7 @@ class ByteBuffer {
         return pos;
     }
     getInt() {
-        const i = this._buffer.readInt32LE(this._position);
+        const i = this._dataView.getInt32(this._position, true);
         this._position += 4;
         return i;
     }
@@ -180,7 +180,7 @@ export default function uncompress(inputBuffer, outputBuffer, initialInputPositi
         throw new CramMalformedError('Incorrect input length.');
     }
     const /* int */ outputSize = input.getInt();
-    const output = new ByteBuffer(outputBuffer || Buffer.allocUnsafe(outputSize));
+    const output = new ByteBuffer(outputBuffer || new Uint8Array(outputSize));
     // TODO output.limit(outputSize)
     if (output.length < outputSize) {
         throw new CramMalformedError(`Output buffer too small to fit ${outputSize} bytes.`);

package/esm/rans/index.js.map CHANGED Viewed

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

	@@ -1 +1 @@
1	- export { ~~gunzipSync~~ as unzip } ~~from 'zlib';~~
1	+ export declare function unzip(input: Uint8Array): Uint8Array<ArrayBufferLike>;

package/esm/unzip.js CHANGED Viewed

@@ -1,2 +1,5 @@
-export { gunzipSync as unzip } from 'zlib';
+import { inflate } from 'pako';
+export function unzip(input) {
+    return inflate(input);
+}
 //# sourceMappingURL=unzip.js.map

package/esm/unzip.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"unzip.js","sourceRoot":"","sources":["../src/unzip.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,~~UAAU~~,~~IAAI,KAAK,~~EAAE,MAAM,MAAM,CAAA"}
1	+ {"version":3,"file":"unzip.js","sourceRoot":"","sources":["../src/unzip.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,OAAO,EAAE,MAAM,MAAM,CAAA;AAE9B,MAAM,UAAU,KAAK,CAAC,KAAiB;IACrC,OAAO,OAAO,CAAC,KAAK,CAAC,CAAA;AACvB,CAAC"}

package/package.json CHANGED Viewed

@@ -1,6 +1,6 @@
 {
   "name": "@gmod/cram",
-  "version": "3.0.7",
+  "version": "4.0.0",
   "description": "read CRAM files with pure Javascript",
   "license": "MIT",
   "repository": "GMOD/cram-js",
@@ -27,8 +27,8 @@
     "docs": "documentation readme --shallow src/indexedCramFile.ts --section=IndexedCramFile; documentation readme --shallow src/cramFile/file.ts --section=CramFile; documentation readme --shallow src/craiIndex.ts --section=CraiIndex;  documentation readme --shallow errors.ts '--section=Exception Classes'; documentation readme --shallow src/cramFile/file.ts --section=CramFile; documentation readme --shallow src/cramFile/record.ts --section=CramRecord",
     "prebuild": "npm run clean",
     "clean": "rimraf dist esm",
-    "build:esm": "tsc --target es2018 --outDir esm",
-    "build:es5": "tsc --target es2015 --module commonjs --outDir dist",
+    "build:esm": "tsc --outDir esm",
+    "build:es5": "tsc --module commonjs --outDir dist",
     "build": "npm run build:esm && npm run build:es5",
     "postbuild": "webpack",
     "prepack": "npm test run && npm run build && cp dist/errors.js errors.js",
@@ -44,6 +44,7 @@
   "dependencies": {
     "bzip2": "^0.1.1",
     "crc": "^4.3.2",
+    "generic-filehandle2": "^0.0.2",
     "long": "^4.0.0",
     "md5": "^2.2.1",
     "pako": "^1.0.4",
@@ -61,13 +62,12 @@
     "buffer": "^6.0.3",
     "documentation": "^14.0.3",
     "eslint": "^9.9.0",
-    "eslint-config-prettier": "^9.0.0",
-    "eslint-plugin-prettier": "^5.1.3",
+    "eslint-plugin-import": "^2.31.0",
     "eslint-plugin-unicorn": "^55.0.0",
     "mock-fs": "^5.2.0",
     "prettier": "^3.2.5",
     "rimraf": "^6.0.1",
-    "typescript": "^5.0.3",
+    "typescript": "^5.7.0",
     "typescript-eslint": "^8.0.1",
     "vitest": "^2.0.5",
     "webpack": "^5.90.3",
@@ -78,8 +78,6 @@
   },
   "browser": {
     "./dist/io/localFile.js": false,
-    "./esm/io/localFile.js": false,
-    "./esm/unzip.js": "./esm/unzip-pako.js",
-    "./dist/unzip.js": "./dist/unzip-pako.js"
+    "./esm/io/localFile.js": false
   }
 }