@gmod/cram 4.0.9 → 5.0.0

package/dist/cramFile/codecs/beta.js.map

@@ -1 +1 @@
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+{"version":3,"file":"beta.js","sourceRoot":"","sources":["../../../src/cramFile/codecs/beta.ts"],"names":[],"mappings":";;;;;AAAA,0DAA+C;AAC/C,6CAAsC;AACtC,+CAAwD;AAKxD,MAAqB,SAAU,SAAQ,kBAGtC;IACC,YAAY,UAAsC,EAAE,QAAe;QACjE,KAAK,CAAC,UAAU,EAAE,QAAQ,CAAC,CAAA;QAC3B,IAAI,IAAI,CAAC,QAAQ,KAAK,KAAK,EAAE,CAAC;YAC5B,MAAM,IAAI,kCAAsB,CAC9B,GAAG,IAAI,CAAC,QAAQ,6CAA6C,CAC9D,CAAA;QACH,CAAC;IACH,CAAC;IAED,MAAM,CACJ,MAAiB,EACjB,aAA4B,EAC5B,kBAAiD,EACjD,OAAgB;QAEhB,MAAM,QAAQ,GAAG,IAAA,oBAAO,EACtB,aAAa,CAAC,OAAO,EACrB,OAAO,CAAC,SAAS,EACjB,IAAI,CAAC,UAAU,CAAC,MAAM,CACvB,CAAA;QACD,OAAO,QAAQ,GAAG,IAAI,CAAC,UAAU,CAAC,MAAM,CAAA;IAC1C,CAAC;CACF;AA1BD,4BA0BC"}

package/dist/cramFile/codecs/byteArrayLength.d.ts

@@ -1,8 +1,8 @@
-import CramCodec, { Cursors } from './_base';
-import { ByteArrayLengthEncoding, CramEncoding } from '../encoding';
-import { CramFileBlock } from '../file';
-import CramSlice from '../slice';
-import { DataType } from './dataSeriesTypes';
+import CramCodec, { Cursors } from './_base.ts';
+import { ByteArrayLengthEncoding, CramEncoding } from '../encoding.ts';
+import { CramFileBlock } from '../file.ts';
+import { DataType } from './dataSeriesTypes.ts';
+import CramSlice from '../slice/index.ts';
 type CramCodecFactory = <TData extends DataType = DataType>(encodingData: CramEncoding, dataType: TData | 'ignore') => CramCodec<TData>;
 export default class ByteArrayStopCodec extends CramCodec<'byteArray', ByteArrayLengthEncoding['parameters']> {
     private instantiateCodec;

package/dist/cramFile/codecs/byteArrayLength.js

@@ -3,9 +3,9 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-const _base_1 = __importDefault(require("./_base"));
-const util_1 = require("../util");
-class ByteArrayStopCodec extends _base_1.default {
+const _base_ts_1 = __importDefault(require("./_base.js"));
+const util_ts_1 = require("../util.js");
+class ByteArrayStopCodec extends _base_ts_1.default {
     constructor(parameters, dataType, instantiateCodec) {
         super(parameters, dataType);
         this.instantiateCodec = instantiateCodec;
@@ -34,6 +34,6 @@ class ByteArrayStopCodec extends _base_1.default {
 }
 exports.default = ByteArrayStopCodec;
 '_getLengthCodec _getDataCodec'.split(' ').forEach(method => {
-    (0, util_1.tinyMemoize)(ByteArrayStopCodec, method);
+    (0, util_ts_1.tinyMemoize)(ByteArrayStopCodec, method);
 });
 //# sourceMappingURL=byteArrayLength.js.map

package/dist/cramFile/codecs/byteArrayLength.js.map

@@ -1 +1 @@
-{"version":3,"file":"byteArrayLength.js","sourceRoot":"","sources":["../../../src/cramFile/codecs/byteArrayLength.ts"],"names":[],"mappings":";;;;;AAAA,oDAA4C;AAK5C,kCAAqC;AAOrC,MAAqB,kBAAmB,SAAQ,eAG/C;IAGC,YACE,UAAiD,EACjD,QAAqB,EACrB,gBAAkC;QAElC,KAAK,CAAC,UAAU,EAAE,QAAQ,CAAC,CAAA;QAC3B,IAAI,CAAC,gBAAgB,GAAG,gBAAgB,CAAA;IAC1C,CAAC;IAED,MAAM,CACJ,KAAgB,EAChB,aAA4B,EAC5B,iBAAgD,EAChD,OAAgB;QAEhB,MAAM,WAAW,GAAG,IAAI,CAAC,eAAe,EAAE,CAAA;QAC1C,MAAM,WAAW,GACf,WAAW,CAAC,MAAM,CAAC,KAAK,EAAE,aAAa,EAAE,iBAAiB,EAAE,OAAO,CAAC,IAAI,CAAC,CAAA;QAE3E,MAAM,SAAS,GAAG,IAAI,CAAC,aAAa,EAAE,CAAA;QACtC,MAAM,IAAI,GAAG,IAAI,UAAU,CAAC,WAAW,CAAC,CAAA;QACxC,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,WAAW,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC;YACxC,IAAI,CAAC,CAAC,CAAC;gBACL,SAAS,CAAC,MAAM,CAAC,KAAK,EAAE,aAAa,EAAE,iBAAiB,EAAE,OAAO,CAAC,IAAI,CAAC,CAAA;QAC3E,CAAC;QAED,OAAO,IAAI,CAAA;IACb,CAAC;IAED,UAAU;IACV,eAAe;QACb,MAAM,cAAc,GAAG,IAAI,CAAC,UAAU,CAAC,eAAe,CAAA;QACtD,OAAO,IAAI,CAAC,gBAAgB,CAAC,cAAc,EAAE,KAAK,CAAC,CAAA;IACrD,CAAC;IAED,UAAU;IACV,aAAa;QACX,MAAM,cAAc,GAAG,IAAI,CAAC,UAAU,CAAC,cAAc,CAAA;QACrD,OAAO,IAAI,CAAC,gBAAgB,CAAC,cAAc,EAAE,MAAM,CAAC,CAAA;IACtD,CAAC;CACF;AA9CD,qCA8CC;AAED,+BAA+B,CAAC,KAAK,CAAC,GAAG,CAAC,CAAC,OAAO,CAAC,MAAM,CAAC,EAAE;IAC1D,IAAA,kBAAW,EAAC,kBAAkB,EAAE,MAAM,CAAC,CAAA;AACzC,CAAC,CAAC,CAAA"}
+{"version":3,"file":"byteArrayLength.js","sourceRoot":"","sources":["../../../src/cramFile/codecs/byteArrayLength.ts"],"names":[],"mappings":";;;;;AAAA,0DAA+C;AAK/C,wCAAwC;AAOxC,MAAqB,kBAAmB,SAAQ,kBAG/C;IAGC,YACE,UAAiD,EACjD,QAAqB,EACrB,gBAAkC;QAElC,KAAK,CAAC,UAAU,EAAE,QAAQ,CAAC,CAAA;QAC3B,IAAI,CAAC,gBAAgB,GAAG,gBAAgB,CAAA;IAC1C,CAAC;IAED,MAAM,CACJ,KAAgB,EAChB,aAA4B,EAC5B,iBAAgD,EAChD,OAAgB;QAEhB,MAAM,WAAW,GAAG,IAAI,CAAC,eAAe,EAAE,CAAA;QAC1C,MAAM,WAAW,GACf,WAAW,CAAC,MAAM,CAAC,KAAK,EAAE,aAAa,EAAE,iBAAiB,EAAE,OAAO,CAAC,IAAI,CAAC,CAAA;QAE3E,MAAM,SAAS,GAAG,IAAI,CAAC,aAAa,EAAE,CAAA;QACtC,MAAM,IAAI,GAAG,IAAI,UAAU,CAAC,WAAW,CAAC,CAAA;QACxC,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,WAAW,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC;YACxC,IAAI,CAAC,CAAC,CAAC;gBACL,SAAS,CAAC,MAAM,CAAC,KAAK,EAAE,aAAa,EAAE,iBAAiB,EAAE,OAAO,CAAC,IAAI,CAAC,CAAA;QAC3E,CAAC;QAED,OAAO,IAAI,CAAA;IACb,CAAC;IAED,UAAU;IACV,eAAe;QACb,MAAM,cAAc,GAAG,IAAI,CAAC,UAAU,CAAC,eAAe,CAAA;QACtD,OAAO,IAAI,CAAC,gBAAgB,CAAC,cAAc,EAAE,KAAK,CAAC,CAAA;IACrD,CAAC;IAED,UAAU;IACV,aAAa;QACX,MAAM,cAAc,GAAG,IAAI,CAAC,UAAU,CAAC,cAAc,CAAA;QACrD,OAAO,IAAI,CAAC,gBAAgB,CAAC,cAAc,EAAE,MAAM,CAAC,CAAA;IACtD,CAAC;CACF;AA9CD,qCA8CC;AAED,+BAA+B,CAAC,KAAK,CAAC,GAAG,CAAC,CAAC,OAAO,CAAC,MAAM,CAAC,EAAE;IAC1D,IAAA,qBAAW,EAAC,kBAAkB,EAAE,MAAM,CAAC,CAAA;AACzC,CAAC,CAAC,CAAA"}

package/dist/cramFile/codecs/byteArrayStop.d.ts

@@ -1,8 +1,8 @@
-import CramCodec, { Cursor, Cursors } from './_base';
-import { ByteArrayStopCramEncoding } from '../encoding';
-import { CramFileBlock } from '../file';
-import CramSlice from '../slice';
+import CramCodec, { Cursor, Cursors } from './_base.ts';
+import { ByteArrayStopCramEncoding } from '../encoding.ts';
+import { CramFileBlock } from '../file.ts';
+import CramSlice from '../slice/index.ts';
 export default class ByteArrayStopCodec extends CramCodec<'byteArray', ByteArrayStopCramEncoding['parameters']> {
-    decode(slice: CramSlice, coreDataBlock: CramFileBlock, blocksByContentId: Record<number, CramFileBlock>, cursors: Cursors): Uint8Array<ArrayBufferLike>;
+    decode(_slice: CramSlice, _coreDataBlock: CramFileBlock, blocksByContentId: Record<number, CramFileBlock>, cursors: Cursors): Uint8Array<ArrayBufferLike>;
     _decodeByteArray(contentBlock: CramFileBlock, cursor: Cursor): Uint8Array<ArrayBufferLike>;
 }

package/dist/cramFile/codecs/byteArrayStop.js

@@ -3,15 +3,15 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-const _base_1 = __importDefault(require("./_base"));
-const errors_1 = require("../../errors");
-const getBits_1 = require("./getBits");
-class ByteArrayStopCodec extends _base_1.default {
-    decode(slice, coreDataBlock, blocksByContentId, cursors) {
+const _base_ts_1 = __importDefault(require("./_base.js"));
+const errors_ts_1 = require("../../errors.js");
+const getBits_ts_1 = require("./getBits.js");
+class ByteArrayStopCodec extends _base_ts_1.default {
+    decode(_slice, _coreDataBlock, blocksByContentId, cursors) {
         const { blockContentId } = this.parameters;
         const contentBlock = blocksByContentId[blockContentId];
         if (!contentBlock) {
-            throw new errors_1.CramMalformedError(`no block found with content ID ${blockContentId}`);
+            throw new errors_ts_1.CramMalformedError(`no block found with content ID ${blockContentId}`);
         }
         const cursor = cursors.externalBlocks.getCursor(blockContentId);
         return this._decodeByteArray(contentBlock, cursor);
@@ -25,7 +25,7 @@ class ByteArrayStopCodec extends _base_1.default {
         while (dataBuffer[stopPosition] !== stopByte &&
             stopPosition < dataBuffer.length) {
             if (stopPosition === dataBuffer.length) {
-                throw new getBits_1.CramBufferOverrunError('byteArrayStop reading beyond length of data buffer?');
+                throw new getBits_ts_1.CramBufferOverrunError('byteArrayStop reading beyond length of data buffer?');
             }
             stopPosition = stopPosition + 1;
         }

package/dist/cramFile/codecs/byteArrayStop.js.map

@@ -1 +1 @@
-{"version":3,"file":"byteArrayStop.js","sourceRoot":"","sources":["../../../src/cramFile/codecs/byteArrayStop.ts"],"names":[],"mappings":";;;;;AAAA,oDAAoD;AACpD,yCAAiD;AAIjD,uCAAkD;AAElD,MAAqB,kBAAmB,SAAQ,eAG/C;IACC,MAAM,CACJ,KAAgB,EAChB,aAA4B,EAC5B,iBAAgD,EAChD,OAAgB;QAEhB,MAAM,EAAE,cAAc,EAAE,GAAG,IAAI,CAAC,UAAU,CAAA;QAC1C,MAAM,YAAY,GAAG,iBAAiB,CAAC,cAAc,CAAC,CAAA;QACtD,IAAI,CAAC,YAAY,EAAE,CAAC;YAClB,MAAM,IAAI,2BAAkB,CAC1B,kCAAkC,cAAc,EAAE,CACnD,CAAA;QACH,CAAC;QACD,MAAM,MAAM,GAAG,OAAO,CAAC,cAAc,CAAC,SAAS,CAAC,cAAc,CAAC,CAAA;QAC/D,OAAO,IAAI,CAAC,gBAAgB,CAAC,YAAY,EAAE,MAAM,CAAC,CAAA;IACpD,CAAC;IAED,gBAAgB,CAAC,YAA2B,EAAE,MAAc;QAC1D,MAAM,UAAU,GAAG,YAAY,CAAC,OAAO,CAAA;QACvC,MAAM,EAAE,QAAQ,EAAE,GAAG,IAAI,CAAC,UAAU,CAAA;QACpC,6BAA6B;QAC7B,MAAM,aAAa,GAAG,MAAM,CAAC,YAAY,CAAA;QACzC,IAAI,YAAY,GAAG,MAAM,CAAC,YAAY,CAAA;QACtC,OACE,UAAU,CAAC,YAAY,CAAC,KAAK,QAAQ;YACrC,YAAY,GAAG,UAAU,CAAC,MAAM,EAChC,CAAC;YACD,IAAI,YAAY,KAAK,UAAU,CAAC,MAAM,EAAE,CAAC;gBACvC,MAAM,IAAI,gCAAsB,CAC9B,qDAAqD,CACtD,CAAA;YACH,CAAC;YACD,YAAY,GAAG,YAAY,GAAG,CAAC,CAAA;QACjC,CAAC;QACD,MAAM,CAAC,YAAY,GAAG,YAAY,GAAG,CAAC,CAAA;QACtC,OAAO,UAAU,CAAC,QAAQ,CAAC,aAAa,EAAE,YAAY,CAAC,CAAA;IACzD,CAAC;CACF;AAzCD,qCAyCC"}
+{"version":3,"file":"byteArrayStop.js","sourceRoot":"","sources":["../../../src/cramFile/codecs/byteArrayStop.ts"],"names":[],"mappings":";;;;;AAAA,0DAAuD;AACvD,+CAAoD;AAGpD,6CAAqD;AAGrD,MAAqB,kBAAmB,SAAQ,kBAG/C;IACC,MAAM,CACJ,MAAiB,EACjB,cAA6B,EAC7B,iBAAgD,EAChD,OAAgB;QAEhB,MAAM,EAAE,cAAc,EAAE,GAAG,IAAI,CAAC,UAAU,CAAA;QAC1C,MAAM,YAAY,GAAG,iBAAiB,CAAC,cAAc,CAAC,CAAA;QACtD,IAAI,CAAC,YAAY,EAAE,CAAC;YAClB,MAAM,IAAI,8BAAkB,CAC1B,kCAAkC,cAAc,EAAE,CACnD,CAAA;QACH,CAAC;QACD,MAAM,MAAM,GAAG,OAAO,CAAC,cAAc,CAAC,SAAS,CAAC,cAAc,CAAC,CAAA;QAC/D,OAAO,IAAI,CAAC,gBAAgB,CAAC,YAAY,EAAE,MAAM,CAAC,CAAA;IACpD,CAAC;IAED,gBAAgB,CAAC,YAA2B,EAAE,MAAc;QAC1D,MAAM,UAAU,GAAG,YAAY,CAAC,OAAO,CAAA;QACvC,MAAM,EAAE,QAAQ,EAAE,GAAG,IAAI,CAAC,UAAU,CAAA;QACpC,6BAA6B;QAC7B,MAAM,aAAa,GAAG,MAAM,CAAC,YAAY,CAAA;QACzC,IAAI,YAAY,GAAG,MAAM,CAAC,YAAY,CAAA;QACtC,OACE,UAAU,CAAC,YAAY,CAAC,KAAK,QAAQ;YACrC,YAAY,GAAG,UAAU,CAAC,MAAM,EAChC,CAAC;YACD,IAAI,YAAY,KAAK,UAAU,CAAC,MAAM,EAAE,CAAC;gBACvC,MAAM,IAAI,mCAAsB,CAC9B,qDAAqD,CACtD,CAAA;YACH,CAAC;YACD,YAAY,GAAG,YAAY,GAAG,CAAC,CAAA;QACjC,CAAC;QACD,MAAM,CAAC,YAAY,GAAG,YAAY,GAAG,CAAC,CAAA;QACtC,OAAO,UAAU,CAAC,QAAQ,CAAC,aAAa,EAAE,YAAY,CAAC,CAAA;IACzD,CAAC;CACF;AAzCD,qCAyCC"}

package/dist/cramFile/codecs/dataSeriesTypes.d.ts

@@ -1,4 +1,4 @@
-import { CramEncoding } from '../encoding';
+import { CramEncoding } from '../encoding.ts';
 export type DataType = 'int' | 'byte' | 'long' | 'byteArray';
 export type DataSeriesEncodingKey = 'BF' | 'CF' | 'RI' | 'RL' | 'AP' | 'RG' | 'RN' | 'MF' | 'NS' | 'NP' | 'TS' | 'NF' | 'TL' | 'FN' | 'FC' | 'FP' | 'DL' | 'BB' | 'QQ' | 'BS' | 'IN' | 'RS' | 'PD' | 'HC' | 'SC' | 'MQ' | 'BA' | 'QS' | 'TC' | 'TN';
 export type DataSeriesEncodingMap = Record<DataSeriesEncodingKey, CramEncoding>;

package/dist/cramFile/codecs/external.d.ts

@@ -1,11 +1,11 @@
-import CramCodec, { Cursor, Cursors } from './_base';
-import { CramFileBlock } from '../file';
-import CramSlice from '../slice';
-import { ExternalCramEncoding } from '../encoding';
+import CramCodec, { Cursor, Cursors } from './_base.ts';
+import { CramFileBlock } from '../file.ts';
+import CramSlice from '../slice/index.ts';
+import { ExternalCramEncoding } from '../encoding.ts';
 export default class ExternalCodec extends CramCodec<'int' | 'byte', ExternalCramEncoding['parameters']> {
     private readonly _decodeData;
     constructor(parameters: ExternalCramEncoding['parameters'], dataType: 'int' | 'byte');
-    decode(slice: CramSlice, coreDataBlock: CramFileBlock, blocksByContentId: Record<number, CramFileBlock>, cursors: Cursors): number | undefined;
+    decode(_slice: CramSlice, _coreDataBlock: CramFileBlock, blocksByContentId: Record<number, CramFileBlock>, cursors: Cursors): number | undefined;
     _decodeInt(contentBlock: CramFileBlock, cursor: Cursor): number;
     _decodeByte(contentBlock: CramFileBlock, cursor: Cursor): number;
 }

package/dist/cramFile/codecs/external.js

@@ -3,11 +3,11 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-const _base_1 = __importDefault(require("./_base"));
-const errors_1 = require("../../errors");
-const util_1 = require("../util");
-const getBits_1 = require("./getBits");
-class ExternalCodec extends _base_1.default {
+const _base_ts_1 = __importDefault(require("./_base.js"));
+const errors_ts_1 = require("../../errors.js");
+const util_ts_1 = require("../util.js");
+const getBits_ts_1 = require("./getBits.js");
+class ExternalCodec extends _base_ts_1.default {
     constructor(parameters, dataType) {
         super(parameters, dataType);
         if (this.dataType === 'int') {
@@ -17,23 +17,24 @@ class ExternalCodec extends _base_1.default {
             this._decodeData = this._decodeByte;
         }
         else {
-            throw new errors_1.CramUnimplementedError(`${this.dataType} decoding not yet implemented by EXTERNAL codec`);
+            throw new errors_ts_1.CramUnimplementedError(`${this.dataType} decoding not yet implemented by EXTERNAL codec`);
         }
     }
-    decode(slice, coreDataBlock, blocksByContentId, cursors) {
+    decode(_slice, _coreDataBlock, blocksByContentId, cursors) {
         const { blockContentId } = this.parameters;
         const contentBlock = blocksByContentId[blockContentId];
-        const cursor = cursors.externalBlocks.getCursor(blockContentId);
-        return contentBlock ? this._decodeData(contentBlock, cursor) : undefined;
+        return contentBlock
+            ? this._decodeData(contentBlock, cursors.externalBlocks.getCursor(blockContentId))
+            : undefined;
     }
     _decodeInt(contentBlock, cursor) {
-        const [result, bytesRead] = (0, util_1.parseItf8)(contentBlock.content, cursor.bytePosition);
+        const [result, bytesRead] = (0, util_ts_1.parseItf8)(contentBlock.content, cursor.bytePosition);
         cursor.bytePosition = cursor.bytePosition + bytesRead;
         return result;
     }
     _decodeByte(contentBlock, cursor) {
         if (cursor.bytePosition >= contentBlock.content.length) {
-            throw new getBits_1.CramBufferOverrunError('attempted to read beyond end of block. this file seems truncated.');
+            throw new getBits_ts_1.CramBufferOverrunError('attempted to read beyond end of block. this file seems truncated.');
         }
         return contentBlock.content[cursor.bytePosition++];
     }

package/dist/cramFile/codecs/external.js.map

@@ -1 +1 @@
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+{"version":3,"file":"external.js","sourceRoot":"","sources":["../../../src/cramFile/codecs/external.ts"],"names":[],"mappings":";;;;;AAAA,0DAAuD;AACvD,+CAAwD;AAGxD,wCAAsC;AACtC,6CAAqD;AAGrD,MAAqB,aAAc,SAAQ,kBAG1C;IAMC,YACE,UAA8C,EAC9C,QAAwB;QAExB,KAAK,CAAC,UAAU,EAAE,QAAQ,CAAC,CAAA;QAC3B,IAAI,IAAI,CAAC,QAAQ,KAAK,KAAK,EAAE,CAAC;YAC5B,IAAI,CAAC,WAAW,GAAG,IAAI,CAAC,UAAU,CAAA;QACpC,CAAC;aAAM,IAAI,IAAI,CAAC,QAAQ,KAAK,MAAM,EAAE,CAAC;YACpC,IAAI,CAAC,WAAW,GAAG,IAAI,CAAC,WAAW,CAAA;QACrC,CAAC;aAAM,CAAC;YACN,MAAM,IAAI,kCAAsB,CAC9B,GAAG,IAAI,CAAC,QAAQ,iDAAiD,CAClE,CAAA;QACH,CAAC;IACH,CAAC;IAED,MAAM,CACJ,MAAiB,EACjB,cAA6B,EAC7B,iBAAgD,EAChD,OAAgB;QAEhB,MAAM,EAAE,cAAc,EAAE,GAAG,IAAI,CAAC,UAAU,CAAA;QAC1C,MAAM,YAAY,GAAG,iBAAiB,CAAC,cAAc,CAAC,CAAA;QACtD,OAAO,YAAY;YACjB,CAAC,CAAC,IAAI,CAAC,WAAW,CACd,YAAY,EACZ,OAAO,CAAC,cAAc,CAAC,SAAS,CAAC,cAAc,CAAC,CACjD;YACH,CAAC,CAAC,SAAS,CAAA;IACf,CAAC;IAED,UAAU,CAAC,YAA2B,EAAE,MAAc;QACpD,MAAM,CAAC,MAAM,EAAE,SAAS,CAAC,GAAG,IAAA,mBAAS,EACnC,YAAY,CAAC,OAAO,EACpB,MAAM,CAAC,YAAY,CACpB,CAAA;QACD,MAAM,CAAC,YAAY,GAAG,MAAM,CAAC,YAAY,GAAG,SAAS,CAAA;QACrD,OAAO,MAAM,CAAA;IACf,CAAC;IAED,WAAW,CAAC,YAA2B,EAAE,MAAc;QACrD,IAAI,MAAM,CAAC,YAAY,IAAI,YAAY,CAAC,OAAO,CAAC,MAAM,EAAE,CAAC;YACvD,MAAM,IAAI,mCAAsB,CAC9B,mEAAmE,CACpE,CAAA;QACH,CAAC;QACD,OAAO,YAAY,CAAC,OAAO,CAAC,MAAM,CAAC,YAAY,EAAE,CAAE,CAAA;IACrD,CAAC;CACF;AA1DD,gCA0DC"}

package/dist/cramFile/codecs/gamma.d.ts

@@ -1,8 +1,8 @@
-import CramCodec, { Cursors } from './_base';
-import { GammaEncoding } from '../encoding';
-import { CramFileBlock } from '../file';
-import CramSlice from '../slice';
+import CramCodec, { Cursors } from './_base.ts';
+import { GammaEncoding } from '../encoding.ts';
+import { CramFileBlock } from '../file.ts';
+import CramSlice from '../slice/index.ts';
 export default class GammaCodec extends CramCodec<'int', GammaEncoding['parameters']> {
     constructor(parameters: GammaEncoding['parameters'], dataType: 'int');
-    decode(slice: CramSlice, coreDataBlock: CramFileBlock, blocksByContentId: Record<number, CramFileBlock>, cursors: Cursors): number;
+    decode(_slice: CramSlice, coreDataBlock: CramFileBlock, _blocksByContentId: Record<number, CramFileBlock>, cursors: Cursors): number;
 }

package/dist/cramFile/codecs/gamma.js

@@ -3,22 +3,22 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-const _base_1 = __importDefault(require("./_base"));
-const getBits_1 = require("./getBits");
-const errors_1 = require("../../errors");
-class GammaCodec extends _base_1.default {
+const _base_ts_1 = __importDefault(require("./_base.js"));
+const getBits_ts_1 = require("./getBits.js");
+const errors_ts_1 = require("../../errors.js");
+class GammaCodec extends _base_ts_1.default {
     constructor(parameters, dataType) {
         super(parameters, dataType);
         if (this.dataType !== 'int') {
-            throw new errors_1.CramUnimplementedError(`${this.dataType} decoding not yet implemented by GAMMA codec`);
+            throw new errors_ts_1.CramUnimplementedError(`${this.dataType} decoding not yet implemented by GAMMA codec`);
         }
     }
-    decode(slice, coreDataBlock, blocksByContentId, cursors) {
+    decode(_slice, coreDataBlock, _blocksByContentId, cursors) {
         let length = 1;
-        while ((0, getBits_1.getBits)(coreDataBlock.content, cursors.coreBlock, 1) === 0) {
+        while ((0, getBits_ts_1.getBits)(coreDataBlock.content, cursors.coreBlock, 1) === 0) {
             length = length + 1;
         }
-        const readBits = (0, getBits_1.getBits)(coreDataBlock.content, cursors.coreBlock, length - 1);
+        const readBits = (0, getBits_ts_1.getBits)(coreDataBlock.content, cursors.coreBlock, length - 1);
         const value = readBits | (1 << (length - 1));
         return value - this.parameters.offset;
     }

package/dist/cramFile/codecs/gamma.js.map

@@ -1 +1 @@
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+{"version":3,"file":"gamma.js","sourceRoot":"","sources":["../../../src/cramFile/codecs/gamma.ts"],"names":[],"mappings":";;;;;AAAA,0DAA+C;AAC/C,6CAAsC;AACtC,+CAAwD;AAKxD,MAAqB,UAAW,SAAQ,kBAGvC;IACC,YAAY,UAAuC,EAAE,QAAe;QAClE,KAAK,CAAC,UAAU,EAAE,QAAQ,CAAC,CAAA;QAC3B,IAAI,IAAI,CAAC,QAAQ,KAAK,KAAK,EAAE,CAAC;YAC5B,MAAM,IAAI,kCAAsB,CAC9B,GAAG,IAAI,CAAC,QAAQ,8CAA8C,CAC/D,CAAA;QACH,CAAC;IACH,CAAC;IAED,MAAM,CACJ,MAAiB,EACjB,aAA4B,EAC5B,kBAAiD,EACjD,OAAgB;QAEhB,IAAI,MAAM,GAAG,CAAC,CAAA;QAEd,OAAO,IAAA,oBAAO,EAAC,aAAa,CAAC,OAAO,EAAE,OAAO,CAAC,SAAS,EAAE,CAAC,CAAC,KAAK,CAAC,EAAE,CAAC;YAClE,MAAM,GAAG,MAAM,GAAG,CAAC,CAAA;QACrB,CAAC;QAED,MAAM,QAAQ,GAAG,IAAA,oBAAO,EACtB,aAAa,CAAC,OAAO,EACrB,OAAO,CAAC,SAAS,EACjB,MAAM,GAAG,CAAC,CACX,CAAA;QAED,MAAM,KAAK,GAAG,QAAQ,GAAG,CAAC,CAAC,IAAI,CAAC,MAAM,GAAG,CAAC,CAAC,CAAC,CAAA;QAC5C,OAAO,KAAK,GAAG,IAAI,CAAC,UAAU,CAAC,MAAM,CAAA;IACvC,CAAC;CACF;AAlCD,6BAkCC"}

package/dist/cramFile/codecs/huffman.d.ts

@@ -1,7 +1,7 @@
-import CramCodec, { Cursor, Cursors } from './_base';
-import { HuffmanEncoding } from '../encoding';
-import { CramFileBlock } from '../file';
-import CramSlice from '../slice';
+import CramCodec, { Cursor, Cursors } from './_base.ts';
+import { HuffmanEncoding } from '../encoding.ts';
+import { CramFileBlock } from '../file.ts';
+import CramSlice from '../slice/index.ts';
 export default class HuffmanIntCodec extends CramCodec<'byte' | 'int', HuffmanEncoding['parameters']> {
     private codes;
     private codeBook;
@@ -14,7 +14,7 @@ export default class HuffmanIntCodec extends CramCodec<'byte' | 'int', HuffmanEn
     buildCodeBook(): void;
     buildCodes(): void;
     buildCaches(): void;
-    decode(slice: CramSlice, coreDataBlock: CramFileBlock, blocksByContentId: Record<number, CramFileBlock>, cursors: Cursors): number;
+    decode(slice: CramSlice, coreDataBlock: CramFileBlock, _blocksByContentId: Record<number, CramFileBlock>, cursors: Cursors): number;
     _decodeZeroLengthCode(): number;
-    _decode(slice: CramSlice, coreDataBlock: CramFileBlock, coreCursor: Cursor): number;
+    _decode(_slice: CramSlice, coreDataBlock: CramFileBlock, coreCursor: Cursor): number;
 }

package/dist/cramFile/codecs/huffman.js

@@ -3,15 +3,15 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-const _base_1 = __importDefault(require("./_base"));
-const getBits_1 = require("./getBits");
-const errors_1 = require("../../errors");
+const _base_ts_1 = __importDefault(require("./_base.js"));
+const getBits_ts_1 = require("./getBits.js");
+const errors_ts_1 = require("../../errors.js");
 function numberOfSetBits(ii) {
     let i = (ii - (ii >> 1)) & 0x55555555;
     i = (i & 0x33333333) + ((i >> 2) & 0x33333333);
     return (((i + (i >> 4)) & 0x0f0f0f0f) * 0x01010101) >> 24;
 }
-class HuffmanIntCodec extends _base_1.default {
+class HuffmanIntCodec extends _base_ts_1.default {
     constructor(parameters, dataType) {
         super(parameters, dataType);
         this.codes = {};
@@ -70,7 +70,7 @@ class HuffmanIntCodec extends _base_1.default {
                 code.bitCode = codeValue; // calculated: huffman code
                 codeLength = codeLength + delta; // adjust current code length
                 if (numberOfSetBits(codeValue) > bitLengthInt) {
-                    throw new errors_1.CramMalformedError('Symbol out of range');
+                    throw new errors_ts_1.CramMalformedError('Symbol out of range');
                 }
                 this.codes[symbol] = code;
             });
@@ -87,7 +87,7 @@ class HuffmanIntCodec extends _base_1.default {
             this.bitCodeToValue[this.sortedCodes[i].bitCode] = i;
         }
     }
-    decode(slice, coreDataBlock, blocksByContentId, cursors) {
+    decode(slice, coreDataBlock, _blocksByContentId, cursors) {
         return this._decode(slice, coreDataBlock, cursors.coreBlock);
     }
     // _decodeNull() {
@@ -97,14 +97,14 @@ class HuffmanIntCodec extends _base_1.default {
     _decodeZeroLengthCode() {
         return this.sortedCodes[0].value;
     }
-    _decode(slice, coreDataBlock, coreCursor) {
+    _decode(_slice, coreDataBlock, coreCursor) {
         const input = coreDataBlock.content;
         let prevLen = 0;
         let bits = 0;
         for (let i = 0; i < this.sortedCodes.length; i += 1) {
             const length = this.sortedCodes[i].bitLength;
             bits <<= length - prevLen;
-            bits |= (0, getBits_1.getBits)(input, coreCursor, length - prevLen);
+            bits |= (0, getBits_ts_1.getBits)(input, coreCursor, length - prevLen);
             prevLen = length;
             {
                 const index = this.bitCodeToValue[bits];
@@ -117,7 +117,7 @@ class HuffmanIntCodec extends _base_1.default {
                 }
             }
         }
-        throw new errors_1.CramMalformedError('Huffman symbol not found.');
+        throw new errors_ts_1.CramMalformedError('Huffman symbol not found.');
     }
 }
 exports.default = HuffmanIntCodec;

package/dist/cramFile/codecs/huffman.js.map

@@ -1 +1 @@
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+{"version":3,"file":"huffman.js","sourceRoot":"","sources":["../../../src/cramFile/codecs/huffman.ts"],"names":[],"mappings":";;;;;AAAA,0DAAuD;AACvD,6CAAsC;AACtC,+CAAoD;AAKpD,SAAS,eAAe,CAAC,EAAU;IACjC,IAAI,CAAC,GAAG,CAAC,EAAE,GAAG,CAAC,EAAE,IAAI,CAAC,CAAC,CAAC,GAAG,UAAU,CAAA;IACrC,CAAC,GAAG,CAAC,CAAC,GAAG,UAAU,CAAC,GAAG,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,GAAG,UAAU,CAAC,CAAA;IAC9C,OAAO,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,GAAG,UAAU,CAAC,GAAG,UAAU,CAAC,IAAI,EAAE,CAAA;AAC3D,CAAC;AAQD,MAAqB,eAAgB,SAAQ,kBAG5C;IASC,YACE,UAAyC,EACzC,QAAwB;QAExB,KAAK,CAAC,UAAU,EAAE,QAAQ,CAAC,CAAA;QAZrB,UAAK,GAAyB,EAAE,CAAA;QAChC,aAAQ,GAA6B,EAAE,CAAA;QACvC,gBAAW,GAAW,EAAE,CAAA;QACxB,0BAAqB,GAAa,EAAE,CAAA;QACpC,mBAAc,GAAa,EAAE,CAAA;QAC7B,8BAAyB,GAAa,EAAE,CAAA;QACxC,mBAAc,GAAa,EAAE,CAAA;QAOnC,IAAI,CAAC,CAAC,MAAM,EAAE,KAAK,CAAC,CAAC,QAAQ,CAAC,IAAI,CAAC,QAAQ,CAAC,EAAE,CAAC;YAC7C,MAAM,IAAI,SAAS,CACjB,GAAG,IAAI,CAAC,QAAQ,oDAAoD,CACrE,CAAA;QACH,CAAC;QAED,IAAI,CAAC,aAAa,EAAE,CAAA;QACpB,IAAI,CAAC,UAAU,EAAE,CAAA;QACjB,IAAI,CAAC,WAAW,EAAE,CAAA;QAElB,qEAAqE;QACrE,WAAW;QACX,IAAI,IAAI,CAAC,WAAW,CAAC,CAAC,CAAE,CAAC,SAAS,KAAK,CAAC,EAAE,CAAC;YACzC,IAAI,CAAC,OAAO,GAAG,IAAI,CAAC,qBAAqB,CAAA;QAC3C,CAAC;IACH,CAAC;IAED,aAAa;QACX,8DAA8D;QAC9D,IAAI,KAAK,GAAG,IAAI,KAAK,CACnB,IAAI,CAAC,UAAU,CAAC,QAAQ,CACzB,CAAA;QACD,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,IAAI,CAAC,UAAU,CAAC,QAAQ,EAAE,CAAC,EAAE,EAAE,CAAC;YAClD,KAAK,CAAC,CAAC,CAAC,GAAG;gBACT,MAAM,EAAE,IAAI,CAAC,UAAU,CAAC,OAAO,CAAC,CAAC,CAAE;gBACnC,SAAS,EAAE,IAAI,CAAC,UAAU,CAAC,UAAU,CAAC,CAAC,CAAE;aAC1C,CAAA;QACH,CAAC;QACD,gDAAgD;QAChD,KAAK,GAAG,KAAK,CAAC,IAAI,CAChB,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,SAAS,GAAG,CAAC,CAAC,SAAS,IAAI,CAAC,CAAC,MAAM,GAAG,CAAC,CAAC,MAAM,CAC3D,CAAA;QAED,IAAI,CAAC,QAAQ,GAAG,EAAE,CAAA;QAClB,KAAK,CAAC,OAAO,CAAC,IAAI,CAAC,EAAE;YACnB,IAAI,CAAC,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,SAAS,CAAC,EAAE,CAAC;gBACnC,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,SAAS,CAAC,GAAG,EAAE,CAAA;YACpC,CAAC;YACD,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,SAAS,CAAE,CAAC,IAAI,CAAC,IAAI,CAAC,MAAM,CAAC,CAAA;QAClD,CAAC,CAAC,CAAA;IACJ,CAAC;IAED,UAAU;QACR,IAAI,CAAC,KAAK,GAAG,EAAE,CAAA,CAAC,8CAA8C;QAC9D,IAAI,UAAU,GAAG,CAAC,CAAA;QAClB,IAAI,SAAS,GAAG,CAAC,CAAC,CAAA;QAClB,MAAM,CAAC,OAAO,CAAC,IAAI,CAAC,QAAQ,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,SAAS,EAAE,OAAO,CAAC,EAAE,EAAE;YAC7D,MAAM,YAAY,GAAG,MAAM,CAAC,QAAQ,CAAC,SAAS,EAAE,EAAE,CAAC,CAAA;YACnD,OAAO,CAAC,OAAO,CAAC,MAAM,CAAC,EAAE;gBACvB,MAAM,IAAI,GAAG;oBACX,SAAS,EAAE,YAAY;oBACvB,KAAK,EAAE,MAAM;oBACb,OAAO,EAAE,CAAC;iBACX,CAAA;gBACD,SAAS,GAAG,SAAS,GAAG,CAAC,CAAA;gBACzB,MAAM,KAAK,GAAG,YAAY,GAAG,UAAU,CAAA,CAAC,cAAc;gBACtD,SAAS,GAAG,SAAS,IAAI,KAAK,CAAA,CAAC,eAAe;gBAC9C,IAAI,CAAC,OAAO,GAAG,SAAS,CAAA,CAAC,2BAA2B;gBACpD,UAAU,GAAG,UAAU,GAAG,KAAK,CAAA,CAAC,6BAA6B;gBAE7D,IAAI,eAAe,CAAC,SAAS,CAAC,GAAG,YAAY,EAAE,CAAC;oBAC9C,MAAM,IAAI,8BAAkB,CAAC,qBAAqB,CAAC,CAAA;gBACrD,CAAC;gBAED,IAAI,CAAC,KAAK,CAAC,MAAM,CAAC,GAAG,IAAI,CAAA;YAC3B,CAAC,CAAC,CAAA;QACJ,CAAC,CAAC,CAAA;IACJ,CAAC;IAED,WAAW;QACT,IAAI,CAAC,WAAW,GAAG,MAAM,CAAC,MAAM,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC,IAAI,CAC/C,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,SAAS,GAAG,CAAC,CAAC,SAAS,IAAI,CAAC,CAAC,OAAO,GAAG,CAAC,CAAC,OAAO,CAC7D,CAAA;QAED,IAAI,CAAC,qBAAqB,GAAG,IAAI,CAAC,WAAW,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,KAAK,CAAC,CAAA;QAC/D,IAAI,CAAC,cAAc,GAAG,IAAI,CAAC,WAAW,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,OAAO,CAAC,CAAA;QAC1D,IAAI,CAAC,yBAAyB,GAAG,IAAI,CAAC,WAAW,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,SAAS,CAAC,CAAA;QACvE,MAAM,UAAU,GAAG,IAAI,CAAC,GAAG,CAAC,GAAG,IAAI,CAAC,cAAc,CAAC,CAAA;QAEnD,IAAI,CAAC,cAAc,GAAG,IAAI,KAAK,CAAC,UAAU,GAAG,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,CAAA;QACxD,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,IAAI,CAAC,cAAc,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC;YACvD,IAAI,CAAC,cAAc,CAAC,IAAI,CAAC,WAAW,CAAC,CAAC,CAAE,CAAC,OAAO,CAAC,GAAG,CAAC,CAAA;QACvD,CAAC;IACH,CAAC;IAED,MAAM,CACJ,KAAgB,EAChB,aAA4B,EAC5B,kBAAiD,EACjD,OAAgB;QAEhB,OAAO,IAAI,CAAC,OAAO,CAAC,KAAK,EAAE,aAAa,EAAE,OAAO,CAAC,SAAS,CAAC,CAAA;IAC9D,CAAC;IAED,kBAAkB;IAClB,cAAc;IACd,IAAI;IAEJ,yCAAyC;IACzC,qBAAqB;QACnB,OAAO,IAAI,CAAC,WAAW,CAAC,CAAC,CAAE,CAAC,KAAK,CAAA;IACnC,CAAC;IAED,OAAO,CAAC,MAAiB,EAAE,aAA4B,EAAE,UAAkB;QACzE,MAAM,KAAK,GAAG,aAAa,CAAC,OAAO,CAAA;QAEnC,IAAI,OAAO,GAAG,CAAC,CAAA;QACf,IAAI,IAAI,GAAG,CAAC,CAAA;QACZ,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,IAAI,CAAC,WAAW,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC;YACpD,MAAM,MAAM,GAAG,IAAI,CAAC,WAAW,CAAC,CAAC,CAAE,CAAC,SAAS,CAAA;YAC7C,IAAI,KAAK,MAAM,GAAG,OAAO,CAAA;YACzB,IAAI,IAAI,IAAA,oBAAO,EAAC,KAAK,EAAE,UAAU,EAAE,MAAM,GAAG,OAAO,CAAC,CAAA;YACpD,OAAO,GAAG,MAAM,CAAA;YAChB,CAAC;gBACC,MAAM,KAAK,GAAG,IAAI,CAAC,cAAc,CAAC,IAAI,CAAE,CAAA;gBACxC,IAAI,KAAK,GAAG,CAAC,CAAC,IAAI,IAAI,CAAC,yBAAyB,CAAC,KAAK,CAAC,KAAK,MAAM,EAAE,CAAC;oBACnE,OAAO,IAAI,CAAC,qBAAqB,CAAC,KAAK,CAAE,CAAA;gBAC3C,CAAC;gBAED,KACE,IAAI,CAAC,GAAG,CAAC,EACT,IAAI,CAAC,WAAW,CAAC,CAAC,GAAG,CAAC,CAAE,CAAC,SAAS,KAAK,MAAM;oBAC7C,CAAC,GAAG,IAAI,CAAC,WAAW,CAAC,MAAM,EAC3B,CAAC,IAAI,CAAC,EACN,CAAC;oBACD,CAAC,IAAI,CAAC,CAAA;gBACR,CAAC;YACH,CAAC;QACH,CAAC;QACD,MAAM,IAAI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package/dist/cramFile/codecs/index.d.ts

@@ -1,4 +1,4 @@
-import CramCodec from './_base';
-import { DataType } from './dataSeriesTypes';
-import { CramEncoding } from '../encoding';
+import CramCodec from './_base.ts';
+import { DataType } from './dataSeriesTypes.ts';
+import { CramEncoding } from '../encoding.ts';
 export declare function instantiateCodec<TResult extends DataType = DataType>(encodingData: CramEncoding, dataType: DataType | 'ignore'): CramCodec<TResult>;

package/dist/cramFile/codecs/index.js

@@ -4,24 +4,24 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
 };
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.instantiateCodec = instantiateCodec;
-const beta_1 = __importDefault(require("./beta"));
-const byteArrayLength_1 = __importDefault(require("./byteArrayLength"));
-const byteArrayStop_1 = __importDefault(require("./byteArrayStop"));
-const external_1 = __importDefault(require("./external"));
-const gamma_1 = __importDefault(require("./gamma"));
-const huffman_1 = __importDefault(require("./huffman"));
-const subexp_1 = __importDefault(require("./subexp"));
-const errors_1 = require("../../errors");
+const beta_ts_1 = __importDefault(require("./beta.js"));
+const byteArrayLength_ts_1 = __importDefault(require("./byteArrayLength.js"));
+const byteArrayStop_ts_1 = __importDefault(require("./byteArrayStop.js"));
+const external_ts_1 = __importDefault(require("./external.js"));
+const gamma_ts_1 = __importDefault(require("./gamma.js"));
+const huffman_ts_1 = __importDefault(require("./huffman.js"));
+const subexp_ts_1 = __importDefault(require("./subexp.js"));
+const errors_ts_1 = require("../../errors.js");
 const codecClasses = {
-    1: external_1.default,
+    1: external_ts_1.default,
     // 2: GolombCodec,
-    3: huffman_1.default,
-    4: byteArrayLength_1.default,
-    5: byteArrayStop_1.default,
-    6: beta_1.default,
-    7: subexp_1.default,
+    3: huffman_ts_1.default,
+    4: byteArrayLength_ts_1.default,
+    5: byteArrayStop_ts_1.default,
+    6: beta_ts_1.default,
+    7: subexp_ts_1.default,
     // 8: GolombRiceCodec,
-    9: gamma_1.default,
+    9: gamma_ts_1.default,
 };
 function getCodecClassWithId(id) {
     return codecClasses[id];
@@ -29,7 +29,7 @@ function getCodecClassWithId(id) {
 function instantiateCodec(encodingData, dataType) {
     const CodecClass = getCodecClassWithId(dataType === 'ignore' ? 0 : encodingData.codecId);
     if (!CodecClass) {
-        throw new errors_1.CramUnimplementedError(`no codec implemented for codec ID ${encodingData.codecId}`);
+        throw new errors_ts_1.CramUnimplementedError(`no codec implemented for codec ID ${encodingData.codecId}`);
     }
     return new CodecClass(encodingData.parameters, dataType, instantiateCodec);
 }

package/dist/cramFile/codecs/index.js.map

@@ -1 +1 @@
-{"version":3,"file":"index.js","sourceRoot":"","sources":["../../../src/cramFile/codecs/index.ts"],"names":[],"mappings":";;;;;AA4BA,4CAcC;AAzCD,kDAA8B;AAC9B,wEAAoD;AACpD,oEAAgD;AAEhD,0DAAsC;AACtC,oDAAgC;AAChC,wDAAuC;AACvC,sDAAkC;AAClC,yCAAqD;AAGrD,MAAM,YAAY,GAAG;IACnB,CAAC,EAAE,kBAAa;IAChB,kBAAkB;IAClB,CAAC,EAAE,iBAAe;IAClB,CAAC,EAAE,yBAAoB;IACvB,CAAC,EAAE,uBAAkB;IACrB,CAAC,EAAE,cAAS;IACZ,CAAC,EAAE,gBAAW;IACd,sBAAsB;IACtB,CAAC,EAAE,eAAU;CACd,CAAA;AAED,SAAS,mBAAmB,CAAC,EAAU;IACrC,OAAQ,YAAoB,CAAC,EAAE,CAAC,CAAA;AAClC,CAAC;AAED,SAAgB,gBAAgB,CAC9B,YAA0B,EAC1B,QAA6B;IAE7B,MAAM,UAAU,GAAG,mBAAmB,CACpC,QAAQ,KAAK,QAAQ,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,YAAY,CAAC,OAAO,CACjD,CAAA;IACD,IAAI,CAAC,UAAU,EAAE,CAAC;QAChB,MAAM,IAAI,+BAAsB,CAC9B,qCAAqC,YAAY,CAAC,OAAO,EAAE,CAC5D,CAAA;IACH,CAAC;IAED,OAAO,IAAI,UAAU,CAAC,YAAY,CAAC,UAAU,EAAE,QAAQ,EAAE,gBAAgB,CAAC,CAAA;AAC5E,CAAC"}
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../../src/cramFile/codecs/index.ts"],"names":[],"mappings":";;;;;AA4BA,4CAcC;AAzCD,wDAAiC;AACjC,8EAAuD;AACvD,0EAAmD;AAEnD,gEAAyC;AACzC,0DAAmC;AACnC,8DAA0C;AAC1C,4DAAqC;AACrC,+CAAwD;AAGxD,MAAM,YAAY,GAAG;IACnB,CAAC,EAAE,qBAAa;IAChB,kBAAkB;IAClB,CAAC,EAAE,oBAAe;IAClB,CAAC,EAAE,4BAAoB;IACvB,CAAC,EAAE,0BAAkB;IACrB,CAAC,EAAE,iBAAS;IACZ,CAAC,EAAE,mBAAW;IACd,sBAAsB;IACtB,CAAC,EAAE,kBAAU;CACd,CAAA;AAED,SAAS,mBAAmB,CAAC,EAAU;IACrC,OAAQ,YAAoB,CAAC,EAAE,CAAC,CAAA;AAClC,CAAC;AAED,SAAgB,gBAAgB,CAC9B,YAA0B,EAC1B,QAA6B;IAE7B,MAAM,UAAU,GAAG,mBAAmB,CACpC,QAAQ,KAAK,QAAQ,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,YAAY,CAAC,OAAO,CACjD,CAAA;IACD,IAAI,CAAC,UAAU,EAAE,CAAC;QAChB,MAAM,IAAI,kCAAsB,CAC9B,qCAAqC,YAAY,CAAC,OAAO,EAAE,CAC5D,CAAA;IACH,CAAC;IAED,OAAO,IAAI,UAAU,CAAC,YAAY,CAAC,UAAU,EAAE,QAAQ,EAAE,gBAAgB,CAAC,CAAA;AAC5E,CAAC"}

package/dist/cramFile/codecs/subexp.d.ts

@@ -1,8 +1,8 @@
-import CramCodec, { Cursors } from './_base';
-import { SubexpEncoding } from '../encoding';
-import { CramFileBlock } from '../file';
-import CramSlice from '../slice';
+import CramCodec, { Cursors } from './_base.ts';
+import { SubexpEncoding } from '../encoding.ts';
+import { CramFileBlock } from '../file.ts';
+import CramSlice from '../slice/index.ts';
 export default class SubexpCodec extends CramCodec<'int', SubexpEncoding['parameters']> {
     constructor(parameters: SubexpEncoding['parameters'], dataType: 'int');
-    decode(slice: CramSlice, coreDataBlock: CramFileBlock, blocksByContentId: Record<number, CramFileBlock>, cursors: Cursors): number;
+    decode(_slice: CramSlice, coreDataBlock: CramFileBlock, _blocksByContentId: Record<number, CramFileBlock>, cursors: Cursors): number;
 }

package/dist/cramFile/codecs/subexp.js

@@ -3,30 +3,30 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-const _base_1 = __importDefault(require("./_base"));
-const getBits_1 = require("./getBits");
-const errors_1 = require("../../errors");
-class SubexpCodec extends _base_1.default {
+const _base_ts_1 = __importDefault(require("./_base.js"));
+const getBits_ts_1 = require("./getBits.js");
+const errors_ts_1 = require("../../errors.js");
+class SubexpCodec extends _base_ts_1.default {
     constructor(parameters, dataType) {
         super(parameters, dataType);
         if (this.dataType !== 'int') {
-            throw new errors_1.CramUnimplementedError(`${this.dataType} decoding not yet implemented by SUBEXP codec`);
+            throw new errors_ts_1.CramUnimplementedError(`${this.dataType} decoding not yet implemented by SUBEXP codec`);
         }
     }
-    decode(slice, coreDataBlock, blocksByContentId, cursors) {
+    decode(_slice, coreDataBlock, _blocksByContentId, cursors) {
         let numLeadingOnes = 0;
-        while ((0, getBits_1.getBits)(coreDataBlock.content, cursors.coreBlock, 1)) {
+        while ((0, getBits_ts_1.getBits)(coreDataBlock.content, cursors.coreBlock, 1)) {
             numLeadingOnes = numLeadingOnes + 1;
         }
         let b;
         let n;
         if (numLeadingOnes === 0) {
             b = this.parameters.K;
-            n = (0, getBits_1.getBits)(coreDataBlock.content, cursors.coreBlock, b);
+            n = (0, getBits_ts_1.getBits)(coreDataBlock.content, cursors.coreBlock, b);
         }
         else {
             b = numLeadingOnes + this.parameters.K - 1;
-            const bits = (0, getBits_1.getBits)(coreDataBlock.content, cursors.coreBlock, b);
+            const bits = (0, getBits_ts_1.getBits)(coreDataBlock.content, cursors.coreBlock, b);
             n = (1 << b) | bits;
         }
         return n - this.parameters.offset;

package/dist/cramFile/codecs/subexp.js.map

@@ -1 +1 @@
-{"version":3,"file":"subexp.js","sourceRoot":"","sources":["../../../src/cramFile/codecs/subexp.ts"],"names":[],"mappings":";;;;;AAAA,oDAA4C;AAC5C,uCAAmC;AACnC,yCAAqD;AAKrD,MAAqB,WAAY,SAAQ,eAGxC;IACC,YAAY,UAAwC,EAAE,QAAe;QACnE,KAAK,CAAC,UAAU,EAAE,QAAQ,CAAC,CAAA;QAC3B,IAAI,IAAI,CAAC,QAAQ,KAAK,KAAK,EAAE,CAAC;YAC5B,MAAM,IAAI,+BAAsB,CAC9B,GAAG,IAAI,CAAC,QAAQ,+CAA+C,CAChE,CAAA;QACH,CAAC;IACH,CAAC;IAED,MAAM,CACJ,KAAgB,EAChB,aAA4B,EAC5B,iBAAgD,EAChD,OAAgB;QAEhB,IAAI,cAAc,GAAG,CAAC,CAAA;QACtB,OAAO,IAAA,iBAAO,EAAC,aAAa,CAAC,OAAO,EAAE,OAAO,CAAC,SAAS,EAAE,CAAC,CAAC,EAAE,CAAC;YAC5D,cAAc,GAAG,cAAc,GAAG,CAAC,CAAA;QACrC,CAAC;QAED,IAAI,CAAS,CAAA;QACb,IAAI,CAAS,CAAA;QACb,IAAI,cAAc,KAAK,CAAC,EAAE,CAAC;YACzB,CAAC,GAAG,IAAI,CAAC,UAAU,CAAC,CAAC,CAAA;YACrB,CAAC,GAAG,IAAA,iBAAO,EAAC,aAAa,CAAC,OAAO,EAAE,OAAO,CAAC,SAAS,EAAE,CAAC,CAAC,CAAA;QAC1D,CAAC;aAAM,CAAC;YACN,CAAC,GAAG,cAAc,GAAG,IAAI,CAAC,UAAU,CAAC,CAAC,GAAG,CAAC,CAAA;YAC1C,MAAM,IAAI,GAAG,IAAA,iBAAO,EAAC,aAAa,CAAC,OAAO,EAAE,OAAO,CAAC,SAAS,EAAE,CAAC,CAAC,CAAA;YACjE,CAAC,GAAG,CAAC,CAAC,IAAI,CAAC,CAAC,GAAG,IAAI,CAAA;QACrB,CAAC;QAED,OAAO,CAAC,GAAG,IAAI,CAAC,UAAU,CAAC,MAAM,CAAA;IACnC,CAAC;CACF;AArCD,8BAqCC"}
+{"version":3,"file":"subexp.js","sourceRoot":"","sources":["../../../src/cramFile/codecs/subexp.ts"],"names":[],"mappings":";;;;;AAAA,0DAA+C;AAC/C,6CAAsC;AACtC,+CAAwD;AAKxD,MAAqB,WAAY,SAAQ,kBAGxC;IACC,YAAY,UAAwC,EAAE,QAAe;QACnE,KAAK,CAAC,UAAU,EAAE,QAAQ,CAAC,CAAA;QAC3B,IAAI,IAAI,CAAC,QAAQ,KAAK,KAAK,EAAE,CAAC;YAC5B,MAAM,IAAI,kCAAsB,CAC9B,GAAG,IAAI,CAAC,QAAQ,+CAA+C,CAChE,CAAA;QACH,CAAC;IACH,CAAC;IAED,MAAM,CACJ,MAAiB,EACjB,aAA4B,EAC5B,kBAAiD,EACjD,OAAgB;QAEhB,IAAI,cAAc,GAAG,CAAC,CAAA;QACtB,OAAO,IAAA,oBAAO,EAAC,aAAa,CAAC,OAAO,EAAE,OAAO,CAAC,SAAS,EAAE,CAAC,CAAC,EAAE,CAAC;YAC5D,cAAc,GAAG,cAAc,GAAG,CAAC,CAAA;QACrC,CAAC;QAED,IAAI,CAAS,CAAA;QACb,IAAI,CAAS,CAAA;QACb,IAAI,cAAc,KAAK,CAAC,EAAE,CAAC;YACzB,CAAC,GAAG,IAAI,CAAC,UAAU,CAAC,CAAC,CAAA;YACrB,CAAC,GAAG,IAAA,oBAAO,EAAC,aAAa,CAAC,OAAO,EAAE,OAAO,CAAC,SAAS,EAAE,CAAC,CAAC,CAAA;QAC1D,CAAC;aAAM,CAAC;YACN,CAAC,GAAG,cAAc,GAAG,IAAI,CAAC,UAAU,CAAC,CAAC,GAAG,CAAC,CAAA;YAC1C,MAAM,IAAI,GAAG,IAAA,oBAAO,EAAC,aAAa,CAAC,OAAO,EAAE,OAAO,CAAC,SAAS,EAAE,CAAC,CAAC,CAAA;YACjE,CAAC,GAAG,CAAC,CAAC,IAAI,CAAC,CAAC,GAAG,IAAI,CAAA;QACrB,CAAC;QAED,OAAO,CAAC,GAAG,IAAI,CAAC,UAAU,CAAC,MAAM,CAAA;IACnC,CAAC;CACF;AArCD,8BAqCC"}

package/dist/cramFile/container/compressionScheme.d.ts

@@ -1,7 +1,7 @@
-import CramCodec from '../codecs/_base';
-import { DataSeriesEncodingKey, DataSeriesEncodingMap } from '../codecs/dataSeriesTypes';
-import { CramEncoding } from '../encoding';
-import { CramCompressionHeader } from '../sectionParsers';
+import CramCodec from '../codecs/_base.ts';
+import { DataSeriesEncodingKey, DataSeriesEncodingMap } from '../codecs/dataSeriesTypes.ts';
+import { CramEncoding } from '../encoding.ts';
+import { CramCompressionHeader } from '../sectionParsers.ts';
 declare const dataSeriesTypes: {
     readonly BF: "int";
     readonly CF: "int";

package/dist/cramFile/container/compressionScheme.js

@@ -1,7 +1,7 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-const errors_1 = require("../../errors");
-const codecs_1 = require("../codecs");
+const errors_ts_1 = require("../../errors.js");
+const index_ts_1 = require("../codecs/index.js");
 // the hardcoded data type to be decoded for each core
 // data field
 const dataSeriesTypes = {
@@ -90,7 +90,7 @@ class CramContainerCompressionScheme {
             if (!encodingData) {
                 throw new Error('Error, no tag encoding');
             }
-            const ret = (0, codecs_1.instantiateCodec)(encodingData, 'byteArray');
+            const ret = (0, index_ts_1.instantiateCodec)(encodingData, 'byteArray');
             this.tagCodecCache[tagName] = ret;
             return ret;
         }
@@ -115,9 +115,9 @@ class CramContainerCompressionScheme {
                 const dataType = dataSeriesTypes[dataSeriesName];
                 // eslint-disable-next-line @typescript-eslint/no-unnecessary-condition
                 if (!dataType) {
-                    throw new errors_1.CramMalformedError(`data series name ${dataSeriesName} not defined in file compression header`);
+                    throw new errors_ts_1.CramMalformedError(`data series name ${dataSeriesName} not defined in file compression header`);
                 }
-                r = (0, codecs_1.instantiateCodec)(encodingData, dataType);
+                r = (0, index_ts_1.instantiateCodec)(encodingData, dataType);
                 // didn't find a way to make TS understand this
                 this.dataSeriesCodecCache[dataSeriesName] = r;
             }

package/dist/cramFile/container/compressionScheme.js.map

@@ -1 +1 @@
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+{"version":3,"file":"compressionScheme.js","sourceRoot":"","sources":["../../../src/cramFile/container/compressionScheme.ts"],"names":[],"mappings":";;AAAA,+CAAoD;AAMpD,iDAAqD;AAIrD,sDAAsD;AACtD,aAAa;AACb,MAAM,eAAe,GAAG;IACtB,EAAE,EAAE,KAAK;IACT,EAAE,EAAE,KAAK;IACT,EAAE,EAAE,KAAK;IACT,EAAE,EAAE,KAAK;IACT,EAAE,EAAE,KAAK;IACT,EAAE,EAAE,KAAK;IACT,EAAE,EAAE,KAAK;IACT,EAAE,EAAE,KAAK;IACT,EAAE,EAAE,KAAK;IACT,EAAE,EAAE,KAAK;IACT,EAAE,EAAE,KAAK;IACT,EAAE,EAAE,MAAM;IACV,EAAE,EAAE,KAAK;IACT,EAAE,EAAE,KAAK;IACT,EAAE,EAAE,MAAM;IACV,EAAE,EAAE,KAAK;IACT,EAAE,EAAE,MAAM;IACV,EAAE,EAAE,WAAW;IACf,EAAE,EAAE,WAAW;IACf,EAAE,EAAE,KAAK;IACT,EAAE,EAAE,MAAM;IACV,EAAE,EAAE,WAAW;IACf,EAAE,EAAE,KAAK;IACT,EAAE,EAAE,KAAK;IACT,EAAE,EAAE,KAAK;IACT,EAAE,EAAE,KAAK;IACT,EAAE,EAAE,WAAW;IACf,EAAE,EAAE,MAAM;IACV,EAAE,EAAE,WAAW;IACf,EAAE,EAAE,KAAK;IACT,gBAAgB;IAChB,gBAAgB;CACR,CAAA;AAIV,SAAS,uBAAuB,CAAC,SAAmB;IAClD,MAAM,MAAM,GAAe,IAAI,KAAK,CAAC,CAAC,CAAC,CAAA;IACvC,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,CAAC,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC;QAC9B,MAAM,CAAC,CAAC,CAAC,GAAG,IAAI,KAAK,CAAC,CAAC,CAAC,CAAA;IAC1B,CAAC;IAED,MAAM,CAAC,CAAC,CAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG,CAAA;IAC1C,MAAM,CAAC,CAAC,CAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG,CAAA;IAC1C,MAAM,CAAC,CAAC,CAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG,CAAA;IAC1C,MAAM,CAAC,CAAC,CAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG,CAAA;IAE1C,MAAM,CAAC,CAAC,CAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG,CAAA;IAC1C,MAAM,CAAC,CAAC,CAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG,CAAA;IAC1C,MAAM,CAAC,CAAC,CAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG,CAAA;IAC1C,MAAM,CAAC,CAAC,CAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG,CAAA;IAE1C,MAAM,CAAC,CAAC,CAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG,CAAA;IAC1C,MAAM,CAAC,CAAC,CAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG,CAAA;IAC1C,MAAM,CAAC,CAAC,CAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG,CAAA;IAC1C,MAAM,CAAC,CAAC,CAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG,CAAA;IAE1C,MAAM,CAAC,CAAC,CAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG,CAAA;IAC1C,MAAM,CAAC,CAAC,CAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG,CAAA;IAC1C,MAAM,CAAC,CAAC,CAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG,CAAA;IAC1C,MAAM,CAAC,CAAC,CAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG,CAAA;IAE1C,MAAM,CAAC,CAAC,CAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG,CAAA;IAC1C,MAAM,CAAC,CAAC,CAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG,CAAA;IAC1C,MAAM,CAAC,CAAC,CAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG,CAAA;IAC1C,MAAM,CAAC,CAAC,CAAE,CAAC,CAAC,SAAS,CAAC,CAAC,CAAE,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,GAAG,CAAA;IAE1C,OAAO,MAAM,CAAA;AACf,CAAC;AAMD,MAAqB,8BAA8B;IAWjD,YAAY,OAA8B;QALnC,yBAAoB,GAAoB,EAAE,CAAA;QAC1C,kBAAa,GAA8B,EAAE,CAAA;QAC7C,gBAAW,GAAiC,EAAE,CAAA;QAInD,iEAAiE;QACjE,IAAI,CAAC,iBAAiB,GAAG,OAAO,CAAC,YAAY,CAAC,EAAE,CAAA;QAChD,IAAI,CAAC,OAAO,GAAG,OAAO,CAAC,YAAY,CAAC,EAAE,CAAA;QACtC,IAAI,CAAC,iBAAiB,GAAG,CAAC,CAAC,OAAO,CAAC,YAAY,CAAC,EAAE,CAAA;QAClD,IAAI,CAAC,gBAAgB,GAAG,OAAO,CAAC,YAAY,CAAC,EAAE,CAAA;QAC/C,IAAI,CAAC,kBAAkB,GAAG,uBAAuB,CAAC,OAAO,CAAC,YAAY,CAAC,EAAE,CAAC,CAAA;QAC1E,IAAI,CAAC,kBAAkB,GAAG,OAAO,CAAC,kBAAkB,CAAA;QACpD,IAAI,CAAC,WAAW,GAAG,OAAO,CAAC,WAAW,CAAA;IACxC,CAAC;IAED;;;OAGG;IACH,cAAc,CAAC,OAAe;QAC5B,MAAM,IAAI,GAAG,IAAI,CAAC,aAAa,CAAC,OAAO,CAAC,CAAA;QACxC,IAAI,CAAC,IAAI,EAAE,CAAC;YACV,MAAM,YAAY,GAAG,IAAI,CAAC,WAAW,CAAC,OAAO,CAAC,CAAA;YAC9C,IAAI,CAAC,YAAY,EAAE,CAAC;gBAClB,MAAM,IAAI,KAAK,CAAC,wBAAwB,CAAC,CAAA;YAC3C,CAAC;YACD,MAAM,GAAG,GAAG,IAAA,2BAAgB,EAC1B,YAAY,EACZ,WAAW,CACZ,CAAA;YACD,IAAI,CAAC,aAAa,CAAC,OAAO,CAAC,GAAG,GAAG,CAAA;YACjC,OAAO,GAAG,CAAA;QACZ,CAAC;aAAM,CAAC;YACN,OAAO,IAAI,CAAA;QACb,CAAC;IACH,CAAC;IAED;;;;OAIG;IACH,WAAW,CAAC,SAAiB;QAC3B,OAAO,IAAI,CAAC,gBAAgB,CAAC,SAAS,CAAC,CAAA;IACzC,CAAC;IAED,qBAAqB,CACnB,cAA2B;QAE3B,IAAI,CAAC,GACH,IAAI,CAAC,oBAAoB,CAAC,cAAc,CAAC,CAAA;QAC3C,IAAI,CAAC,KAAK,SAAS,EAAE,CAAC;YACpB,MAAM,YAAY,GAAG,IAAI,CAAC,kBAAkB,CAAC,cAAc,CAAC,CAAA;YAC5D,uEAAuE;YACvE,IAAI,YAAY,EAAE,CAAC;gBACjB,MAAM,QAAQ,GAAG,eAAe,CAAC,cAAc,CAAC,CAAA;gBAChD,uEAAuE;gBACvE,IAAI,CAAC,QAAQ,EAAE,CAAC;oBACd,MAAM,IAAI,8BAAkB,CAC1B,oBAAoB,cAAc,yCAAyC,CAC5E,CAAA;gBACH,CAAC;gBACD,CAAC,GAAG,IAAA,2BAAgB,EAAC,YAAY,EAAE,QAAQ,CAAC,CAAA;gBAC5C,+CAA+C;gBAC/C,IAAI,CAAC,oBAAoB,CAAC,cAAc,CAAC,GAAG,CAAmB,CAAA;YACjE,CAAC;QACH,CAAC;QACD,OAAO,CAAC,CAAA;IACV,CAAC;IAED,MAAM;QACJ,MAAM,IAAI,GAAQ,EAAE,CAAA;QACpB,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,EAAE;YAC5B,IAAI,CAAC,CAAC,QAAQ,CAAC,OAAO,CAAC,EAAE,CAAC;gBACxB,OAAM;YACR,CAAC;YACD,IAAI,CAAC,CAAC,CAAC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package/dist/cramFile/container/index.d.ts

@@ -1,6 +1,6 @@
-import CramSlice from '../slice';
-import CramContainerCompressionScheme from './compressionScheme';
-import CramFile from '../file';
+import CramSlice from '../slice/index.ts';
+import CramContainerCompressionScheme from './compressionScheme.ts';
+import CramFile from '../file.ts';
 export default class CramContainer {
     file: CramFile;
     filePosition: number;
@@ -22,14 +22,14 @@ export default class CramContainer {
     }>;
     getCompressionHeaderBlock(): Promise<{
         parsedContent: {
-            dataSeriesEncoding: import("../codecs/dataSeriesTypes").DataSeriesEncodingMap;
-            preservation: import("../sectionParsers").CramPreservationMap;
-            tagEncoding: Record<string, import("../encoding").CramEncoding>;
+            dataSeriesEncoding: import("../codecs/dataSeriesTypes.ts").DataSeriesEncodingMap;
+            preservation: import("../sectionParsers.ts").CramPreservationMap;
+            tagEncoding: Record<string, import("../encoding.ts").CramEncoding>;
         } & {
             _endPosition: number;
             _size: number;
         };
-        compressionMethod: import("../sectionParsers").CompressionMethod;
+        compressionMethod: import("../sectionParsers.ts").CompressionMethod;
         contentType: "FILE_HEADER" | "COMPRESSION_HEADER" | "MAPPED_SLICE_HEADER" | "UNMAPPED_SLICE_HEADER" | "EXTERNAL_DATA" | "CORE_DATA";
         contentId: number;
         compressedSize: number;
@@ -40,7 +40,7 @@ export default class CramContainer {
         content: Uint8Array;
         crc32?: number;
     } | null>;
-    getFirstBlock(): Promise<import("../file").CramFileBlock>;
+    getFirstBlock(): Promise<import("../file.ts").CramFileBlock>;
     getCompressionScheme(): Promise<CramContainerCompressionScheme | undefined>;
     getSlice(slicePosition: number, sliceSize: number): CramSlice;
     _readContainerHeader(position: number): Promise<{