npm - @gmod/bam - Versions diffs - 5.0.7 → 6.0.0 - Mend

@gmod/bam 5.0.7 → 6.0.0

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 (74) hide show

package/dist/htsget.js CHANGED Viewed

@@ -34,9 +34,9 @@ var __importStar = (this && this.__importStar) || (function () {
 })();
 Object.defineProperty(exports, "__esModule", { value: true });
 const bgzf_filehandle_1 = require("@gmod/bgzf-filehandle");
-const bamFile_1 = __importStar(require("./bamFile"));
-const sam_1 = require("./sam");
-const util_1 = require("./util");
+const bamFile_ts_1 = __importStar(require("./bamFile.js"));
+const sam_ts_1 = require("./sam.js");
+const util_ts_1 = require("./util.js");
 async function concat(arr, opts) {
     const res = await Promise.all(arr.map(async (chunk) => {
         const { url, headers } = chunk;
@@ -64,11 +64,9 @@ async function concat(arr, opts) {
             return new Uint8Array(await res.arrayBuffer());
         }
     }));
-    return (0, util_1.concatUint8Array)(await Promise.all(res.map(elt => (0, bgzf_filehandle_1.unzip)(elt))));
+    return (0, util_ts_1.concatUint8Array)(await Promise.all(res.map(elt => (0, bgzf_filehandle_1.unzip)(elt))));
 }
-class HtsgetFile extends bamFile_1.default {
-    baseUrl;
-    trackId;
+class HtsgetFile extends bamFile_ts_1.default {
     constructor(args) {
         super({ htsget: true });
         this.baseUrl = args.baseUrl;
@@ -141,13 +139,13 @@ class HtsgetFile extends bamFile_1.default {
         const data = await result.json();
         const uncba = await concat(data.htsget.urls, opts);
         const dataView = new DataView(uncba.buffer);
-        if (dataView.getInt32(0, true) !== bamFile_1.BAM_MAGIC) {
+        if (dataView.getInt32(0, true) !== bamFile_ts_1.BAM_MAGIC) {
             throw new Error('Not a BAM file');
         }
         const headLen = dataView.getInt32(4, true);
         const decoder = new TextDecoder('utf8');
         const headerText = decoder.decode(uncba.subarray(8, 8 + headLen));
-        const samHeader = (0, sam_1.parseHeaderText)(headerText);
+        const samHeader = (0, sam_ts_1.parseHeaderText)(headerText);
         // use the @SQ lines in the header to figure out the
         // mapping between ref ref ID numbers and names
         const idToName = [];

package/dist/htsget.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"htsget.js","sourceRoot":"","sources":["../src/htsget.ts"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,2DAA6C;AAE7C,~~qDAA8C~~;~~AAE9C,+BAAuC~~;~~AACvC~~,~~iCAA4D~~;~~AAM5D~~,KAAK,UAAU,MAAM,CAAC,GAAkB,EAAE,IAA0B;IAClE,MAAM,GAAG,GAAG,MAAM,OAAO,CAAC,GAAG,CAC3B,GAAG,CAAC,GAAG,CAAC,KAAK,EAAC,KAAK,EAAC,EAAE;QACpB,MAAM,EAAE,GAAG,EAAE,OAAO,EAAE,GAAG,KAAK,CAAA;QAC9B,IAAI,GAAG,CAAC,UAAU,CAAC,OAAO,CAAC,EAAE,CAAC;YAC5B,oDAAoD;YACpD,+CAA+C;YAC/C,MAAM,GAAG,GAAG,MAAM,KAAK,CAAC,GAAG,CAAC,CAAA;YAC5B,IAAI,CAAC,GAAG,CAAC,EAAE,EAAE,CAAC;gBACZ,MAAM,IAAI,KAAK,CAAC,yBAAyB,CAAC,CAAA;YAC5C,CAAC;YACD,MAAM,GAAG,GAAG,MAAM,GAAG,CAAC,WAAW,EAAE,CAAA;YACnC,OAAO,IAAI,UAAU,CAAC,GAAG,CAAC,CAAA;QAC5B,CAAC;aAAM,CAAC;YACN,gEAAgE;YAChE,mBAAmB;YAEnB,MAAM,EAAE,OAAO,EAAE,GAAG,IAAI,EAAE,GAAG,OAAO,CAAA;YACpC,MAAM,GAAG,GAAG,MAAM,KAAK,CAAC,GAAG,EAAE;gBAC3B,GAAG,IAAI;gBACP,OAAO,EAAE,EAAE,GAAG,IAAI,EAAE,OAAO,EAAE,GAAG,IAAI,EAAE;aACvC,CAAC,CAAA;YACF,IAAI,CAAC,GAAG,CAAC,EAAE,EAAE,CAAC;gBACZ,MAAM,IAAI,KAAK,CACb,QAAQ,GAAG,CAAC,MAAM,aAAa,GAAG,KAAK,MAAM,GAAG,CAAC,IAAI,EAAE,EAAE,CAC1D,CAAA;YACH,CAAC;YACD,OAAO,IAAI,UAAU,CAAC,MAAM,GAAG,CAAC,WAAW,EAAE,CAAC,CAAA;QAChD,CAAC;IACH,CAAC,CAAC,CACH,CAAA;IAED,OAAO,IAAA,~~uBAAgB~~,EAAC,MAAM,OAAO,CAAC,GAAG,CAAC,GAAG,CAAC,GAAG,CAAC,GAAG,CAAC,EAAE,CAAC,IAAA,uBAAK,EAAC,GAAG,CAAC,CAAC,CAAC,CAAC,CAAA;AACxE,CAAC;AAED,MAAqB,UAAW,SAAQ,~~iBAAO~~;~~IACrC~~,~~OAAO,CAAQ;IAEf,OAAO,CAAQ;IAEvB,~~YAAY,IAA0C;QACpD,KAAK,CAAC,EAAE,MAAM,EAAE,IAAI,EAAE,CAAC,CAAA;QACvB,IAAI,CAAC,OAAO,GAAG,IAAI,CAAC,OAAO,CAAA;QAC3B,IAAI,CAAC,OAAO,GAAG,IAAI,CAAC,OAAO,CAAA;IAC7B,CAAC;IAED,KAAK,CAAC,CAAC,qBAAqB,CAC1B,GAAW,EACX,GAAW,EACX,GAAW,EACX,IAAc;QAEd,MAAM,IAAI,GAAG,GAAG,IAAI,CAAC,OAAO,IAAI,IAAI,CAAC,OAAO,EAAE,CAAA;QAC9C,MAAM,GAAG,GAAG,GAAG,IAAI,kBAAkB,GAAG,UAAU,GAAG,QAAQ,GAAG,aAAa,CAAA;QAC7E,MAAM,KAAK,GAAG,IAAI,CAAC,UAAU,EAAE,CAAC,GAAG,CAAC,CAAA;QACpC,IAAI,KAAK,KAAK,SAAS,EAAE,CAAC;YACxB,MAAM,EAAE,CAAA;QACV,CAAC;aAAM,CAAC;YACN,MAAM,MAAM,GAAG,MAAM,KAAK,CAAC,GAAG,EAAE,EAAE,GAAG,IAAI,EAAE,CAAC,CAAA;YAC5C,IAAI,CAAC,MAAM,CAAC,EAAE,EAAE,CAAC;gBACf,MAAM,IAAI,KAAK,CACb,QAAQ,MAAM,CAAC,MAAM,aAAa,GAAG,KAAK,MAAM,MAAM,CAAC,IAAI,EAAE,EAAE,CAChE,CAAA;YACH,CAAC;YACD,MAAM,IAAI,GAAG,MAAM,MAAM,CAAC,IAAI,EAAE,CAAA;YAChC,MAAM,KAAK,GAAG,MAAM,MAAM,CAAC,IAAI,CAAC,MAAM,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE,IAAI,CAAC,CAAA;YAE3D,KAAK,CAAC,CAAC,IAAI,CAAC,mBAAmB,CAC7B;gBACE,sCAAsC;gBACtC;oBACE,MAAM,EAAE,KAAK;oBACb,YAAY,EAAE,SAAS;oBACvB,GAAG,EAAE,CAAC;oBACN,SAAS;wBACP,OAAO,CAAC,CAAA;oBACV,CAAC;oBACD,cAAc;wBACZ,OAAO,GAAG,GAAG,IAAI,GAAG,IAAI,GAAG,EAAE,CAAA;oBAC/B,CAAC;oBACD,WAAW;wBACT,OAAO,CAAC,CAAA;oBACV,CAAC;oBACD,IAAI,EAAE;wBACJ,YAAY,EAAE,CAAC;wBACf,aAAa,EAAE,CAAC;wBAChB,SAAS,EAAE,GAAG,EAAE,CAAC,CAAC;qBACnB;oBACD,IAAI,EAAE;wBACJ,YAAY,EAAE,MAAM,CAAC,gBAAgB;wBACrC,aAAa,EAAE,CAAC;wBAChB,SAAS,EAAE,GAAG,EAAE,CAAC,CAAC;qBACnB;oBACD,QAAQ;wBACN,OAAO,GAAG,GAAG,IAAI,GAAG,IAAI,GAAG,EAAE,CAAA;oBAC/B,CAAC;iBACF;aACF,EACD,KAAK,EACL,GAAG,EACH,GAAG,EACH,IAAI,CACL,CAAA;QACH,CAAC;IACH,CAAC;IAED,mBAAmB;IACnB,KAAK,CAAC,UAAU,CAAC,EAAE,KAAK,EAAoC;QAC1D,IAAI,CAAC,KAAK,CAAC,MAAM,EAAE,CAAC;YAClB,MAAM,IAAI,KAAK,CAAC,iCAAiC,CAAC,CAAA;QACpD,CAAC;QACD,OAAO;YACL,IAAI,EAAE,KAAK,CAAC,MAAM;YAClB,UAAU,EAAE,EAAE;YACd,UAAU,EAAE,EAAE;YACd,KAAK;SACN,CAAA;IACH,CAAC;IAED,KAAK,CAAC,SAAS,CAAC,OAAiB,EAAE;QACjC,MAAM,GAAG,GAAG,GAAG,IAAI,CAAC,OAAO,IAAI,IAAI,CAAC,OAAO,gCAAgC,CAAA;QAC3E,MAAM,MAAM,GAAG,MAAM,KAAK,CAAC,GAAG,EAAE,IAAI,CAAC,CAAA;QACrC,IAAI,CAAC,MAAM,CAAC,EAAE,EAAE,CAAC;YACf,MAAM,IAAI,KAAK,CACb,QAAQ,MAAM,CAAC,MAAM,aAAa,GAAG,KAAK,MAAM,MAAM,CAAC,IAAI,EAAE,EAAE,CAChE,CAAA;QACH,CAAC;QACD,MAAM,IAAI,GAAG,MAAM,MAAM,CAAC,IAAI,EAAE,CAAA;QAChC,MAAM,KAAK,GAAG,MAAM,MAAM,CAAC,IAAI,CAAC,MAAM,CAAC,IAAI,EAAE,IAAI,CAAC,CAAA;QAClD,MAAM,QAAQ,GAAG,IAAI,QAAQ,CAAC,KAAK,CAAC,MAAM,CAAC,CAAA;QAE3C,IAAI,QAAQ,CAAC,QAAQ,CAAC,CAAC,EAAE,IAAI,CAAC,KAAK,~~mBAAS~~,EAAE,CAAC;YAC7C,MAAM,IAAI,KAAK,CAAC,gBAAgB,CAAC,CAAA;QACnC,CAAC;QACD,MAAM,OAAO,GAAG,QAAQ,CAAC,QAAQ,CAAC,CAAC,EAAE,IAAI,CAAC,CAAA;QAE1C,MAAM,OAAO,GAAG,IAAI,WAAW,CAAC,MAAM,CAAC,CAAA;QACvC,MAAM,UAAU,GAAG,OAAO,CAAC,MAAM,CAAC,KAAK,CAAC,QAAQ,CAAC,CAAC,EAAE,CAAC,GAAG,OAAO,CAAC,CAAC,CAAA;QACjE,MAAM,SAAS,GAAG,IAAA,~~qBAAe~~,EAAC,UAAU,CAAC,CAAA;QAE7C,oDAAoD;QACpD,+CAA+C;QAC/C,MAAM,QAAQ,GAA0C,EAAE,CAAA;QAC1D,MAAM,QAAQ,GAA2B,EAAE,CAAA;QAC3C,MAAM,OAAO,GAAG,SAAS,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,GAAG,KAAK,IAAI,CAAC,CAAA;QACrD,KAAK,MAAM,CAAC,KAAK,EAAE,MAAM,CAAC,IAAI,OAAO,CAAC,OAAO,EAAE,EAAE,CAAC;YAChD,IAAI,OAAO,GAAG,EAAE,CAAA;YAChB,IAAI,MAAM,GAAG,CAAC,CAAA;YACd,KAAK,MAAM,IAAI,IAAI,MAAM,CAAC,IAAI,EAAE,CAAC;gBAC/B,IAAI,IAAI,CAAC,GAAG,KAAK,IAAI,EAAE,CAAC;oBACtB,OAAO,GAAG,IAAI,CAAC,KAAK,CAAA;gBACtB,CAAC;qBAAM,IAAI,IAAI,CAAC,GAAG,KAAK,IAAI,EAAE,CAAC;oBAC7B,MAAM,GAAG,CAAC,IAAI,CAAC,KAAK,CAAA;gBACtB,CAAC;YACH,CAAC;YACD,QAAQ,CAAC,OAAO,CAAC,GAAG,KAAK,CAAA;YACzB,QAAQ,CAAC,KAAK,CAAC,GAAG,EAAE,OAAO,EAAE,MAAM,EAAE,CAAA;QACvC,CAAC;QACD,IAAI,CAAC,UAAU,GAAG,QAAQ,CAAA;QAC1B,IAAI,CAAC,UAAU,GAAG,QAAQ,CAAA;QAC1B,OAAO,SAAS,CAAA;IAClB,CAAC;CACF;AA/HD,6BA+HC"}
1	+ {"version":3,"file":"htsget.js","sourceRoot":"","sources":["../src/htsget.ts"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,2DAA6C;AAE7C,2DAAiD;AAEjD,qCAA0C;AAC1C,uCAA4C;AAS5C,KAAK,UAAU,MAAM,CAAC,GAAkB,EAAE,IAA0B;IAClE,MAAM,GAAG,GAAG,MAAM,OAAO,CAAC,GAAG,CAC3B,GAAG,CAAC,GAAG,CAAC,KAAK,EAAC,KAAK,EAAC,EAAE;QACpB,MAAM,EAAE,GAAG,EAAE,OAAO,EAAE,GAAG,KAAK,CAAA;QAC9B,IAAI,GAAG,CAAC,UAAU,CAAC,OAAO,CAAC,EAAE,CAAC;YAC5B,oDAAoD;YACpD,+CAA+C;YAC/C,MAAM,GAAG,GAAG,MAAM,KAAK,CAAC,GAAG,CAAC,CAAA;YAC5B,IAAI,CAAC,GAAG,CAAC,EAAE,EAAE,CAAC;gBACZ,MAAM,IAAI,KAAK,CAAC,yBAAyB,CAAC,CAAA;YAC5C,CAAC;YACD,MAAM,GAAG,GAAG,MAAM,GAAG,CAAC,WAAW,EAAE,CAAA;YACnC,OAAO,IAAI,UAAU,CAAC,GAAG,CAAC,CAAA;QAC5B,CAAC;aAAM,CAAC;YACN,gEAAgE;YAChE,mBAAmB;YAEnB,MAAM,EAAE,OAAO,EAAE,GAAG,IAAI,EAAE,GAAG,OAAO,CAAA;YACpC,MAAM,GAAG,GAAG,MAAM,KAAK,CAAC,GAAG,EAAE;gBAC3B,GAAG,IAAI;gBACP,OAAO,EAAE,EAAE,GAAG,IAAI,EAAE,OAAO,EAAE,GAAG,IAAI,EAAE;aACvC,CAAC,CAAA;YACF,IAAI,CAAC,GAAG,CAAC,EAAE,EAAE,CAAC;gBACZ,MAAM,IAAI,KAAK,CACb,QAAQ,GAAG,CAAC,MAAM,aAAa,GAAG,KAAK,MAAM,GAAG,CAAC,IAAI,EAAE,EAAE,CAC1D,CAAA;YACH,CAAC;YACD,OAAO,IAAI,UAAU,CAAC,MAAM,GAAG,CAAC,WAAW,EAAE,CAAC,CAAA;QAChD,CAAC;IACH,CAAC,CAAC,CACH,CAAA;IAED,OAAO,IAAA,0BAAgB,EAAC,MAAM,OAAO,CAAC,GAAG,CAAC,GAAG,CAAC,GAAG,CAAC,GAAG,CAAC,EAAE,CAAC,IAAA,uBAAK,EAAC,GAAG,CAAC,CAAC,CAAC,CAAC,CAAA;AACxE,CAAC;AAED,MAAqB,UAAW,SAAQ,oBAAO;IAK7C,YAAY,IAA0C;QACpD,KAAK,CAAC,EAAE,MAAM,EAAE,IAAI,EAAE,CAAC,CAAA;QACvB,IAAI,CAAC,OAAO,GAAG,IAAI,CAAC,OAAO,CAAA;QAC3B,IAAI,CAAC,OAAO,GAAG,IAAI,CAAC,OAAO,CAAA;IAC7B,CAAC;IAED,KAAK,CAAC,CAAC,qBAAqB,CAC1B,GAAW,EACX,GAAW,EACX,GAAW,EACX,IAAc;QAEd,MAAM,IAAI,GAAG,GAAG,IAAI,CAAC,OAAO,IAAI,IAAI,CAAC,OAAO,EAAE,CAAA;QAC9C,MAAM,GAAG,GAAG,GAAG,IAAI,kBAAkB,GAAG,UAAU,GAAG,QAAQ,GAAG,aAAa,CAAA;QAC7E,MAAM,KAAK,GAAG,IAAI,CAAC,UAAU,EAAE,CAAC,GAAG,CAAC,CAAA;QACpC,IAAI,KAAK,KAAK,SAAS,EAAE,CAAC;YACxB,MAAM,EAAE,CAAA;QACV,CAAC;aAAM,CAAC;YACN,MAAM,MAAM,GAAG,MAAM,KAAK,CAAC,GAAG,EAAE,EAAE,GAAG,IAAI,EAAE,CAAC,CAAA;YAC5C,IAAI,CAAC,MAAM,CAAC,EAAE,EAAE,CAAC;gBACf,MAAM,IAAI,KAAK,CACb,QAAQ,MAAM,CAAC,MAAM,aAAa,GAAG,KAAK,MAAM,MAAM,CAAC,IAAI,EAAE,EAAE,CAChE,CAAA;YACH,CAAC;YACD,MAAM,IAAI,GAAG,MAAM,MAAM,CAAC,IAAI,EAAE,CAAA;YAChC,MAAM,KAAK,GAAG,MAAM,MAAM,CAAC,IAAI,CAAC,MAAM,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE,IAAI,CAAC,CAAA;YAE3D,KAAK,CAAC,CAAC,IAAI,CAAC,mBAAmB,CAC7B;gBACE,sCAAsC;gBACtC;oBACE,MAAM,EAAE,KAAK;oBACb,YAAY,EAAE,SAAS;oBACvB,GAAG,EAAE,CAAC;oBACN,SAAS;wBACP,OAAO,CAAC,CAAA;oBACV,CAAC;oBACD,cAAc;wBACZ,OAAO,GAAG,GAAG,IAAI,GAAG,IAAI,GAAG,EAAE,CAAA;oBAC/B,CAAC;oBACD,WAAW;wBACT,OAAO,CAAC,CAAA;oBACV,CAAC;oBACD,IAAI,EAAE;wBACJ,YAAY,EAAE,CAAC;wBACf,aAAa,EAAE,CAAC;wBAChB,SAAS,EAAE,GAAG,EAAE,CAAC,CAAC;qBACnB;oBACD,IAAI,EAAE;wBACJ,YAAY,EAAE,MAAM,CAAC,gBAAgB;wBACrC,aAAa,EAAE,CAAC;wBAChB,SAAS,EAAE,GAAG,EAAE,CAAC,CAAC;qBACnB;oBACD,QAAQ;wBACN,OAAO,GAAG,GAAG,IAAI,GAAG,IAAI,GAAG,EAAE,CAAA;oBAC/B,CAAC;iBACF;aACF,EACD,KAAK,EACL,GAAG,EACH,GAAG,EACH,IAAI,CACL,CAAA;QACH,CAAC;IACH,CAAC;IAED,mBAAmB;IACnB,KAAK,CAAC,UAAU,CAAC,EAAE,KAAK,EAAoC;QAC1D,IAAI,CAAC,KAAK,CAAC,MAAM,EAAE,CAAC;YAClB,MAAM,IAAI,KAAK,CAAC,iCAAiC,CAAC,CAAA;QACpD,CAAC;QACD,OAAO;YACL,IAAI,EAAE,KAAK,CAAC,MAAM;YAClB,UAAU,EAAE,EAAE;YACd,UAAU,EAAE,EAAE;YACd,KAAK;SACN,CAAA;IACH,CAAC;IAED,KAAK,CAAC,SAAS,CAAC,OAAiB,EAAE;QACjC,MAAM,GAAG,GAAG,GAAG,IAAI,CAAC,OAAO,IAAI,IAAI,CAAC,OAAO,gCAAgC,CAAA;QAC3E,MAAM,MAAM,GAAG,MAAM,KAAK,CAAC,GAAG,EAAE,IAAI,CAAC,CAAA;QACrC,IAAI,CAAC,MAAM,CAAC,EAAE,EAAE,CAAC;YACf,MAAM,IAAI,KAAK,CACb,QAAQ,MAAM,CAAC,MAAM,aAAa,GAAG,KAAK,MAAM,MAAM,CAAC,IAAI,EAAE,EAAE,CAChE,CAAA;QACH,CAAC;QACD,MAAM,IAAI,GAAG,MAAM,MAAM,CAAC,IAAI,EAAE,CAAA;QAChC,MAAM,KAAK,GAAG,MAAM,MAAM,CAAC,IAAI,CAAC,MAAM,CAAC,IAAI,EAAE,IAAI,CAAC,CAAA;QAClD,MAAM,QAAQ,GAAG,IAAI,QAAQ,CAAC,KAAK,CAAC,MAAM,CAAC,CAAA;QAE3C,IAAI,QAAQ,CAAC,QAAQ,CAAC,CAAC,EAAE,IAAI,CAAC,KAAK,sBAAS,EAAE,CAAC;YAC7C,MAAM,IAAI,KAAK,CAAC,gBAAgB,CAAC,CAAA;QACnC,CAAC;QACD,MAAM,OAAO,GAAG,QAAQ,CAAC,QAAQ,CAAC,CAAC,EAAE,IAAI,CAAC,CAAA;QAE1C,MAAM,OAAO,GAAG,IAAI,WAAW,CAAC,MAAM,CAAC,CAAA;QACvC,MAAM,UAAU,GAAG,OAAO,CAAC,MAAM,CAAC,KAAK,CAAC,QAAQ,CAAC,CAAC,EAAE,CAAC,GAAG,OAAO,CAAC,CAAC,CAAA;QACjE,MAAM,SAAS,GAAG,IAAA,wBAAe,EAAC,UAAU,CAAC,CAAA;QAE7C,oDAAoD;QACpD,+CAA+C;QAC/C,MAAM,QAAQ,GAA0C,EAAE,CAAA;QAC1D,MAAM,QAAQ,GAA2B,EAAE,CAAA;QAC3C,MAAM,OAAO,GAAG,SAAS,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,GAAG,KAAK,IAAI,CAAC,CAAA;QACrD,KAAK,MAAM,CAAC,KAAK,EAAE,MAAM,CAAC,IAAI,OAAO,CAAC,OAAO,EAAE,EAAE,CAAC;YAChD,IAAI,OAAO,GAAG,EAAE,CAAA;YAChB,IAAI,MAAM,GAAG,CAAC,CAAA;YACd,KAAK,MAAM,IAAI,IAAI,MAAM,CAAC,IAAI,EAAE,CAAC;gBAC/B,IAAI,IAAI,CAAC,GAAG,KAAK,IAAI,EAAE,CAAC;oBACtB,OAAO,GAAG,IAAI,CAAC,KAAK,CAAA;gBACtB,CAAC;qBAAM,IAAI,IAAI,CAAC,GAAG,KAAK,IAAI,EAAE,CAAC;oBAC7B,MAAM,GAAG,CAAC,IAAI,CAAC,KAAK,CAAA;gBACtB,CAAC;YACH,CAAC;YACD,QAAQ,CAAC,OAAO,CAAC,GAAG,KAAK,CAAA;YACzB,QAAQ,CAAC,KAAK,CAAC,GAAG,EAAE,OAAO,EAAE,MAAM,EAAE,CAAA;QACvC,CAAC;QACD,IAAI,CAAC,UAAU,GAAG,QAAQ,CAAA;QAC1B,IAAI,CAAC,UAAU,GAAG,QAAQ,CAAA;QAC1B,OAAO,SAAS,CAAA;IAClB,CAAC;CACF;AA/HD,6BA+HC"}

package/dist/index.d.ts CHANGED Viewed

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

package/dist/index.js CHANGED Viewed

@@ -4,14 +4,14 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
 };
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.HtsgetFile = exports.BamRecord = exports.CSI = exports.BamFile = exports.BAI = void 0;
-var bai_1 = require("./bai");
-Object.defineProperty(exports, "BAI", { enumerable: true, get: function () { return __importDefault(bai_1).default; } });
-var bamFile_1 = require("./bamFile");
-Object.defineProperty(exports, "BamFile", { enumerable: true, get: function () { return __importDefault(bamFile_1).default; } });
-var csi_1 = require("./csi");
-Object.defineProperty(exports, "CSI", { enumerable: true, get: function () { return __importDefault(csi_1).default; } });
-var record_1 = require("./record");
-Object.defineProperty(exports, "BamRecord", { enumerable: true, get: function () { return __importDefault(record_1).default; } });
-var htsget_1 = require("./htsget");
-Object.defineProperty(exports, "HtsgetFile", { enumerable: true, get: function () { return __importDefault(htsget_1).default; } });
+var bai_ts_1 = require("./bai.js");
+Object.defineProperty(exports, "BAI", { enumerable: true, get: function () { return __importDefault(bai_ts_1).default; } });
+var bamFile_ts_1 = require("./bamFile.js");
+Object.defineProperty(exports, "BamFile", { enumerable: true, get: function () { return __importDefault(bamFile_ts_1).default; } });
+var csi_ts_1 = require("./csi.js");
+Object.defineProperty(exports, "CSI", { enumerable: true, get: function () { return __importDefault(csi_ts_1).default; } });
+var record_ts_1 = require("./record.js");
+Object.defineProperty(exports, "BamRecord", { enumerable: true, get: function () { return __importDefault(record_ts_1).default; } });
+var htsget_ts_1 = require("./htsget.js");
+Object.defineProperty(exports, "HtsgetFile", { enumerable: true, get: function () { return __importDefault(htsget_ts_1).default; } });
 //# sourceMappingURL=index.js.map

package/dist/index.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":";;;;;;AAAA,~~6BAAsC~~;~~AAA7B~~,~~2GAAA~~,OAAO,OAAO;AACvB,~~qCAA8C~~;~~AAArC~~,~~mHAAA~~,OAAO,OAAW;AAC3B,~~6BAAsC~~;~~AAA7B~~,~~2GAAA~~,OAAO,OAAO;AACvB,~~mCAA+C~~;~~AAAtC~~,~~oHAAA~~,OAAO,OAAa;AAC7B,~~mCAAgD~~;~~AAAvC~~,~~qHAAA~~,OAAO,OAAc"}
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"}

package/dist/indexFile.d.ts CHANGED Viewed

@@ -1,13 +1,9 @@
-import Chunk from './chunk';
-import { BaseOpts } from './util';
+import Chunk from './chunk.ts';
+import { BaseOpts } from './util.ts';
 import type { GenericFilehandle } from 'generic-filehandle2';
 export default abstract class IndexFile {
     filehandle: GenericFilehandle;
     renameRefSeq: (s: string) => string;
-    /**
-     * @param {filehandle} filehandle
-     * @param {function} renameRefSeqs
-     */
     constructor({ filehandle, renameRefSeq, }: {
         filehandle: GenericFilehandle;
         renameRefSeq?: (a: string) => string;

package/dist/indexFile.js CHANGED Viewed

@@ -1,12 +1,6 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
 class IndexFile {
-    filehandle;
-    renameRefSeq;
-    /**
-     * @param {filehandle} filehandle
-     * @param {function} renameRefSeqs
-     */
     constructor({ filehandle, renameRefSeq = (n) => n, }) {
         this.filehandle = filehandle;
         this.renameRefSeq = renameRefSeq;

package/dist/indexFile.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"indexFile.js","sourceRoot":"","sources":["../src/indexFile.ts"],"names":[],"mappings":";;AAKA,MAA8B,SAAS;~~IAC9B~~,~~UAAU,CAAmB;IAC7B,~~YAAY,~~CAAuB;IAE1C;;;OAGG;IACH,YAAY,~~EACV,UAAU,EACV,YAAY,GAAG,CAAC,CAAS,EAAE,EAAE,CAAC,CAAC,GAIhC;QACC,IAAI,CAAC,UAAU,GAAG,UAAU,CAAA;QAC5B,IAAI,CAAC,YAAY,GAAG,YAAY,CAAA;IAClC,CAAC;CAcF;~~AA/BD~~,~~4BA+BC~~"}
1	+ {"version":3,"file":"indexFile.js","sourceRoot":"","sources":["../src/indexFile.ts"],"names":[],"mappings":";;AAKA,MAA8B,SAAS;IAIrC,YAAY,EACV,UAAU,EACV,YAAY,GAAG,CAAC,CAAS,EAAE,EAAE,CAAC,CAAC,GAIhC;QACC,IAAI,CAAC,UAAU,GAAG,UAAU,CAAA;QAC5B,IAAI,CAAC,YAAY,GAAG,YAAY,CAAA;IAClC,CAAC;CAcF;AA3BD,4BA2BC"}

package/dist/nullIndex.d.ts CHANGED Viewed

@@ -1,4 +1,4 @@
-import IndexFile from './indexFile';
+import IndexFile from './indexFile.ts';
 export default class NullIndex extends IndexFile {
     lineCount(): Promise<any>;
     protected _parse(): Promise<any>;

package/dist/nullIndex.js CHANGED Viewed

@@ -3,8 +3,8 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-const indexFile_1 = __importDefault(require("./indexFile"));
-class NullIndex extends indexFile_1.default {
+const indexFile_ts_1 = __importDefault(require("./indexFile.js"));
+class NullIndex extends indexFile_ts_1.default {
     lineCount() {
         throw new Error('never called');
     }

package/dist/nullIndex.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"nullIndex.js","sourceRoot":"","sources":["../src/nullIndex.ts"],"names":[],"mappings":";;;;;AAAA,~~4DAAmC~~;~~AAEnC~~,MAAqB,SAAU,SAAQ,~~mBAAS~~;IACvC,SAAS;QACd,MAAM,IAAI,KAAK,CAAC,cAAc,CAAC,CAAA;IACjC,CAAC;IACS,MAAM;QACd,MAAM,IAAI,KAAK,CAAC,cAAc,CAAC,CAAA;IACjC,CAAC;IAEM,KAAK,CAAC,QAAQ;QACnB,MAAM,IAAI,KAAK,CAAC,cAAc,CAAC,CAAA;IACjC,CAAC;IAEM,cAAc;QACnB,MAAM,IAAI,KAAK,CAAC,cAAc,CAAC,CAAA;IACjC,CAAC;CACF;AAfD,4BAeC"}
1	+ {"version":3,"file":"nullIndex.js","sourceRoot":"","sources":["../src/nullIndex.ts"],"names":[],"mappings":";;;;;AAAA,kEAAsC;AAEtC,MAAqB,SAAU,SAAQ,sBAAS;IACvC,SAAS;QACd,MAAM,IAAI,KAAK,CAAC,cAAc,CAAC,CAAA;IACjC,CAAC;IACS,MAAM;QACd,MAAM,IAAI,KAAK,CAAC,cAAc,CAAC,CAAA;IACjC,CAAC;IAEM,KAAK,CAAC,QAAQ;QACnB,MAAM,IAAI,KAAK,CAAC,cAAc,CAAC,CAAA;IACjC,CAAC;IAEM,cAAc;QACnB,MAAM,IAAI,KAAK,CAAC,cAAc,CAAC,CAAA;IACjC,CAAC;CACF;AAfD,4BAeC"}

package/dist/record.js CHANGED Viewed

@@ -1,31 +1,41 @@
 "use strict";
+var __classPrivateFieldSet = (this && this.__classPrivateFieldSet) || function (receiver, state, value, kind, f) {
+    if (kind === "m") throw new TypeError("Private method is not writable");
+    if (kind === "a" && !f) throw new TypeError("Private accessor was defined without a setter");
+    if (typeof state === "function" ? receiver !== state || !f : !state.has(receiver)) throw new TypeError("Cannot write private member to an object whose class did not declare it");
+    return (kind === "a" ? f.call(receiver, value) : f ? f.value = value : state.set(receiver, value)), value;
+};
+var __classPrivateFieldGet = (this && this.__classPrivateFieldGet) || function (receiver, state, kind, f) {
+    if (kind === "a" && !f) throw new TypeError("Private accessor was defined without a getter");
+    if (typeof state === "function" ? receiver !== state || !f : !state.has(receiver)) throw new TypeError("Cannot read private member from an object whose class did not declare it");
+    return kind === "m" ? f : kind === "a" ? f.call(receiver) : f ? f.value : state.get(receiver);
+};
 var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
+var _BamRecord_dataView;
 Object.defineProperty(exports, "__esModule", { value: true });
-const constants_1 = __importDefault(require("./constants"));
+const constants_ts_1 = __importDefault(require("./constants.js"));
 const SEQRET_DECODER = '=ACMGRSVTWYHKDBN'.split('');
 const CIGAR_DECODER = 'MIDNSHP=X???????'.split('');
 class BamRecord {
-    fileOffset;
-    bytes;
-    #dataView;
     constructor(args) {
+        _BamRecord_dataView.set(this, void 0);
         this.bytes = args.bytes;
         this.fileOffset = args.fileOffset;
-        this.#dataView = new DataView(this.bytes.byteArray.buffer);
+        __classPrivateFieldSet(this, _BamRecord_dataView, new DataView(this.bytes.byteArray.buffer), "f");
     }
     get byteArray() {
         return this.bytes.byteArray;
     }
     get flags() {
-        return ((this.#dataView.getInt32(this.bytes.start + 16, true) & 0xffff0000) >> 16);
+        return ((__classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt32(this.bytes.start + 16, true) & 0xffff0000) >> 16);
     }
     get ref_id() {
-        return this.#dataView.getInt32(this.bytes.start + 4, true);
+        return __classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt32(this.bytes.start + 4, true);
     }
     get start() {
-        return this.#dataView.getInt32(this.bytes.start + 8, true);
+        return __classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt32(this.bytes.start + 8, true);
     }
     get end() {
         return this.start + this.length_on_ref;
@@ -80,31 +90,31 @@ class BamRecord {
                 p += 1;
             }
             else if (type === 'i') {
-                tags[tag] = this.#dataView.getInt32(p, true);
+                tags[tag] = __classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt32(p, true);
                 p += 4;
             }
             else if (type === 'I') {
-                tags[tag] = this.#dataView.getUint32(p, true);
+                tags[tag] = __classPrivateFieldGet(this, _BamRecord_dataView, "f").getUint32(p, true);
                 p += 4;
             }
             else if (type === 'c') {
-                tags[tag] = this.#dataView.getInt8(p);
+                tags[tag] = __classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt8(p);
                 p += 1;
             }
             else if (type === 'C') {
-                tags[tag] = this.#dataView.getUint8(p);
+                tags[tag] = __classPrivateFieldGet(this, _BamRecord_dataView, "f").getUint8(p);
                 p += 1;
             }
             else if (type === 's') {
-                tags[tag] = this.#dataView.getInt16(p, true);
+                tags[tag] = __classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt16(p, true);
                 p += 2;
             }
             else if (type === 'S') {
-                tags[tag] = this.#dataView.getUint16(p, true);
+                tags[tag] = __classPrivateFieldGet(this, _BamRecord_dataView, "f").getUint16(p, true);
                 p += 2;
             }
             else if (type === 'f') {
-                tags[tag] = this.#dataView.getFloat32(p, true);
+                tags[tag] = __classPrivateFieldGet(this, _BamRecord_dataView, "f").getFloat32(p, true);
                 p += 4;
             }
             else if (type === 'Z' || type === 'H') {
@@ -123,13 +133,13 @@ class BamRecord {
             else if (type === 'B') {
                 const cc = this.byteArray[p++];
                 const Btype = String.fromCharCode(cc);
-                const limit = this.#dataView.getInt32(p, true);
+                const limit = __classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt32(p, true);
                 p += 4;
                 if (Btype === 'i') {
                     if (tag === 'CG') {
                         const value = [];
                         for (let k = 0; k < limit; k++) {
-                            const cigop = this.#dataView.getInt32(p, true);
+                            const cigop = __classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt32(p, true);
                             const lop = cigop >> 4;
                             const op = CIGAR_DECODER[cigop & 0xf];
                             value.push(lop + op);
@@ -140,7 +150,7 @@ class BamRecord {
                     else {
                         const value = [];
                         for (let k = 0; k < limit; k++) {
-                            value.push(this.#dataView.getInt32(p, true));
+                            value.push(__classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt32(p, true));
                             p += 4;
                         }
                         tags[tag] = value;
@@ -150,7 +160,7 @@ class BamRecord {
                     if (tag === 'CG') {
                         const value = [];
                         for (let k = 0; k < limit; k++) {
-                            const cigop = this.#dataView.getUint32(p, true);
+                            const cigop = __classPrivateFieldGet(this, _BamRecord_dataView, "f").getUint32(p, true);
                             const lop = cigop >> 4;
                             const op = CIGAR_DECODER[cigop & 0xf];
                             value.push(lop + op);
@@ -161,7 +171,7 @@ class BamRecord {
                     else {
                         const value = [];
                         for (let k = 0; k < limit; k++) {
-                            value.push(this.#dataView.getUint32(p, true));
+                            value.push(__classPrivateFieldGet(this, _BamRecord_dataView, "f").getUint32(p, true));
                             p += 4;
                         }
                         tags[tag] = value;
@@ -170,7 +180,7 @@ class BamRecord {
                 else if (Btype === 's') {
                     const value = [];
                     for (let k = 0; k < limit; k++) {
-                        value.push(this.#dataView.getInt16(p, true));
+                        value.push(__classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt16(p, true));
                         p += 2;
                     }
                     tags[tag] = value;
@@ -178,7 +188,7 @@ class BamRecord {
                 else if (Btype === 'S') {
                     const value = [];
                     for (let k = 0; k < limit; k++) {
-                        value.push(this.#dataView.getUint16(p, true));
+                        value.push(__classPrivateFieldGet(this, _BamRecord_dataView, "f").getUint16(p, true));
                         p += 2;
                     }
                     tags[tag] = value;
@@ -186,7 +196,7 @@ class BamRecord {
                 else if (Btype === 'c') {
                     const value = [];
                     for (let k = 0; k < limit; k++) {
-                        value.push(this.#dataView.getInt8(p));
+                        value.push(__classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt8(p));
                         p += 1;
                     }
                     tags[tag] = value;
@@ -194,7 +204,7 @@ class BamRecord {
                 else if (Btype === 'C') {
                     const value = [];
                     for (let k = 0; k < limit; k++) {
-                        value.push(this.#dataView.getUint8(p));
+                        value.push(__classPrivateFieldGet(this, _BamRecord_dataView, "f").getUint8(p));
                         p += 1;
                     }
                     tags[tag] = value;
@@ -202,7 +212,7 @@ class BamRecord {
                 else if (Btype === 'f') {
                     const value = [];
                     for (let k = 0; k < limit; k++) {
-                        value.push(this.#dataView.getFloat32(p, true));
+                        value.push(__classPrivateFieldGet(this, _BamRecord_dataView, "f").getFloat32(p, true));
                         p += 4;
                     }
                     tags[tag] = value;
@@ -220,51 +230,51 @@ class BamRecord {
      * segments are mapped
      */
     isPaired() {
-        return !!(this.flags & constants_1.default.BAM_FPAIRED);
+        return !!(this.flags & constants_ts_1.default.BAM_FPAIRED);
     }
     /** @returns {boolean} true if the read is paired, and both segments are mapped */
     isProperlyPaired() {
-        return !!(this.flags & constants_1.default.BAM_FPROPER_PAIR);
+        return !!(this.flags & constants_ts_1.default.BAM_FPROPER_PAIR);
     }
     /** @returns {boolean} true if the read itself is unmapped; conflictive with isProperlyPaired */
     isSegmentUnmapped() {
-        return !!(this.flags & constants_1.default.BAM_FUNMAP);
+        return !!(this.flags & constants_ts_1.default.BAM_FUNMAP);
     }
     /** @returns {boolean} true if the read itself is unmapped; conflictive with isProperlyPaired */
     isMateUnmapped() {
-        return !!(this.flags & constants_1.default.BAM_FMUNMAP);
+        return !!(this.flags & constants_ts_1.default.BAM_FMUNMAP);
     }
     /** @returns {boolean} true if the read is mapped to the reverse strand */
     isReverseComplemented() {
-        return !!(this.flags & constants_1.default.BAM_FREVERSE);
+        return !!(this.flags & constants_ts_1.default.BAM_FREVERSE);
     }
     /** @returns {boolean} true if the mate is mapped to the reverse strand */
     isMateReverseComplemented() {
-        return !!(this.flags & constants_1.default.BAM_FMREVERSE);
+        return !!(this.flags & constants_ts_1.default.BAM_FMREVERSE);
     }
     /** @returns {boolean} true if this is read number 1 in a pair */
     isRead1() {
-        return !!(this.flags & constants_1.default.BAM_FREAD1);
+        return !!(this.flags & constants_ts_1.default.BAM_FREAD1);
     }
     /** @returns {boolean} true if this is read number 2 in a pair */
     isRead2() {
-        return !!(this.flags & constants_1.default.BAM_FREAD2);
+        return !!(this.flags & constants_ts_1.default.BAM_FREAD2);
     }
     /** @returns {boolean} true if this is a secondary alignment */
     isSecondary() {
-        return !!(this.flags & constants_1.default.BAM_FSECONDARY);
+        return !!(this.flags & constants_ts_1.default.BAM_FSECONDARY);
     }
     /** @returns {boolean} true if this read has failed QC checks */
     isFailedQc() {
-        return !!(this.flags & constants_1.default.BAM_FQCFAIL);
+        return !!(this.flags & constants_ts_1.default.BAM_FQCFAIL);
     }
     /** @returns {boolean} true if the read is an optical or PCR duplicate */
     isDuplicate() {
-        return !!(this.flags & constants_1.default.BAM_FDUP);
+        return !!(this.flags & constants_ts_1.default.BAM_FDUP);
     }
     /** @returns {boolean} true if this is a supplementary alignment */
     isSupplementary() {
-        return !!(this.flags & constants_1.default.BAM_FSUPPLEMENTARY);
+        return !!(this.flags & constants_ts_1.default.BAM_FSUPPLEMENTARY);
     }
     get cigarAndLength() {
         if (this.isSegmentUnmapped()) {
@@ -278,14 +288,14 @@ class BamRecord {
         const CIGAR = [];
         // check for CG tag by inspecting whether the CIGAR field contains a clip
         // that consumes entire seqLen
-        let cigop = this.#dataView.getInt32(p, true);
+        let cigop = __classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt32(p, true);
         let lop = cigop >> 4;
         let op = CIGAR_DECODER[cigop & 0xf];
         if (op === 'S' && lop === this.seq_length) {
             // if there is a CG the second CIGAR field will be a N tag the represents
             // the length on ref
             p += 4;
-            cigop = this.#dataView.getInt32(p, true);
+            cigop = __classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt32(p, true);
             lop = cigop >> 4;
             op = CIGAR_DECODER[cigop & 0xf];
             if (op !== 'N') {
@@ -299,7 +309,7 @@ class BamRecord {
         else {
             let lref = 0;
             for (let c = 0; c < numCigarOps; ++c) {
-                cigop = this.#dataView.getInt32(p, true);
+                cigop = __classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt32(p, true);
                 lop = cigop >> 4;
                 op = CIGAR_DECODER[cigop & 0xf];
                 CIGAR.push(lop + op);
@@ -384,22 +394,22 @@ class BamRecord {
         return undefined;
     }
     get bin_mq_nl() {
-        return this.#dataView.getInt32(this.bytes.start + 12, true);
+        return __classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt32(this.bytes.start + 12, true);
     }
     get flag_nc() {
-        return this.#dataView.getInt32(this.bytes.start + 16, true);
+        return __classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt32(this.bytes.start + 16, true);
     }
     get seq_length() {
-        return this.#dataView.getInt32(this.bytes.start + 20, true);
+        return __classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt32(this.bytes.start + 20, true);
     }
     get next_refid() {
-        return this.#dataView.getInt32(this.bytes.start + 24, true);
+        return __classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt32(this.bytes.start + 24, true);
     }
     get next_pos() {
-        return this.#dataView.getInt32(this.bytes.start + 28, true);
+        return __classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt32(this.bytes.start + 28, true);
     }
     get template_length() {
-        return this.#dataView.getInt32(this.bytes.start + 32, true);
+        return __classPrivateFieldGet(this, _BamRecord_dataView, "f").getInt32(this.bytes.start + 32, true);
     }
     toJSON() {
         const data = {};
@@ -413,6 +423,7 @@ class BamRecord {
         return data;
     }
 }
+_BamRecord_dataView = new WeakMap();
 exports.default = BamRecord;
 function cacheGetter(ctor, prop) {
     const desc = Object.getOwnPropertyDescriptor(ctor.prototype, prop);

package/dist/record.js.map CHANGED Viewed

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

@@ -1,5 +1,5 @@
-import Chunk from './chunk';
-import { Offset, VirtualOffset } from './virtualOffset';
+import Chunk from './chunk.ts';
+import { Offset, VirtualOffset } from './virtualOffset.ts';
 export declare function timeout(ms: number): Promise<unknown>;
 /**
  * Properly check if the given AbortSignal is aborted.

package/dist/util.js CHANGED Viewed

@@ -12,7 +12,7 @@ exports.parseNameBytes = parseNameBytes;
 exports.sum = sum;
 exports.concatUint8Array = concatUint8Array;
 exports.gen2array = gen2array;
-const long_1 = require("./long");
+const long_ts_1 = require("./long.js");
 function timeout(ms) {
     return new Promise(resolve => setTimeout(resolve, ms));
 }
@@ -95,7 +95,7 @@ function optimizeChunks(chunks, lowest) {
 }
 function parsePseudoBin(bytes, offset) {
     return {
-        lineCount: (0, long_1.longFromBytesToUnsigned)(bytes, offset),
+        lineCount: (0, long_ts_1.longFromBytesToUnsigned)(bytes, offset),
     };
 }
 function findFirstData(firstDataLine, virtualOffset) {

package/dist/util.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/dist/virtualOffset.js CHANGED Viewed

@@ -3,8 +3,6 @@ Object.defineProperty(exports, "__esModule", { value: true });
 exports.VirtualOffset = void 0;
 exports.fromBytes = fromBytes;
 class VirtualOffset {
-    blockPosition;
-    dataPosition;
     constructor(blockPosition, dataPosition) {
         this.blockPosition = blockPosition; // < offset of the compressed data block
         this.dataPosition = dataPosition; // < offset into the uncompressed data

package/dist/virtualOffset.js.map CHANGED Viewed

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

@@ -1,7 +1,7 @@
-import Chunk from './chunk';
-import IndexFile from './indexFile';
-import { BaseOpts } from './util';
-import { VirtualOffset } from './virtualOffset';
+import Chunk from './chunk.ts';
+import IndexFile from './indexFile.ts';
+import { BaseOpts } from './util.ts';
+import { VirtualOffset } from './virtualOffset.ts';
 export interface IndexCovEntry {
     start: number;
     end: number;