@gmod/bam 1.1.11 → 1.1.12
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.
- package/CHANGELOG.md +7 -0
- package/dist/bai.js +1 -2
- package/dist/bai.js.map +1 -1
- package/dist/bamFile.d.ts +1 -0
- package/dist/bamFile.js +14 -0
- package/dist/bamFile.js.map +1 -1
- package/dist/indexFile.d.ts +1 -1
- package/esm/bai.js +4 -2
- package/esm/bai.js.map +1 -1
- package/esm/bamFile.d.ts +1 -0
- package/esm/bamFile.js +5 -0
- package/esm/bamFile.js.map +1 -1
- package/esm/indexFile.d.ts +1 -1
- package/package.json +1 -1
package/CHANGELOG.md
CHANGED
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@@ -1,3 +1,10 @@
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1
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<a name="1.1.12"></a>
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## [1.1.12](https://github.com/GMOD/bam-js/compare/v1.1.11...v1.1.12) (2022-02-17)
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- Add blocksForRange method to BamFile class to help stats estimation in JBrowse 2
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<a name="1.1.11"></a>
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## [1.1.11](https://github.com/GMOD/bam-js/compare/v1.1.10...v1.1.11) (2022-01-26)
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10
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package/dist/bai.js
CHANGED
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@@ -279,8 +279,7 @@ var BAI = /** @class */ (function (_super) {
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if (!ba) {
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return [2 /*return*/, []];
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}
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-
overlappingBins = this.reg2bins(min, max)
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-
;
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+
overlappingBins = this.reg2bins(min, max);
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chunks = [];
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// Find chunks in overlapping bins. Leaf bins (< 4681) are not pruned
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for (_i = 0, overlappingBins_1 = overlappingBins; _i < overlappingBins_1.length; _i++) {
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package/dist/bai.js.map
CHANGED
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@@ -1 +1 @@
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1
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-
{"version":3,"file":"bai.js","sourceRoot":"","sources":["../src/bai.ts"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,8CAAuB;AACvB,iDAA2C;AAC3C,kDAA2B;AAE3B,0DAAmC;AACnC,+BAAgF;AAEhF,IAAM,SAAS,GAAG,QAAQ,CAAA,CAAC,QAAQ;AAEnC,SAAS,SAAS,CAAC,CAAS,EAAE,QAAgB;IAC5C,OAAO,CAAC,GAAG,CAAC,CAAC,GAAG,QAAQ,CAAC,CAAA;AAC3B,CAAC;AACD,SAAS,OAAO,CAAC,CAAS,EAAE,QAAgB;IAC1C,OAAO,CAAC,GAAG,CAAC,CAAC,GAAG,QAAQ,CAAC,GAAG,QAAQ,CAAA;AACtC,CAAC;AAED;IAAiC,uBAAS;IAA1C;;
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1
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+
{"version":3,"file":"bai.js","sourceRoot":"","sources":["../src/bai.ts"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,8CAAuB;AACvB,iDAA2C;AAC3C,kDAA2B;AAE3B,0DAAmC;AACnC,+BAAgF;AAEhF,IAAM,SAAS,GAAG,QAAQ,CAAA,CAAC,QAAQ;AAEnC,SAAS,SAAS,CAAC,CAAS,EAAE,QAAgB;IAC5C,OAAO,CAAC,GAAG,CAAC,CAAC,GAAG,QAAQ,CAAC,CAAA;AAC3B,CAAC;AACD,SAAS,OAAO,CAAC,CAAS,EAAE,QAAgB;IAC1C,OAAO,CAAC,GAAG,CAAC,CAAC,GAAG,QAAQ,CAAC,GAAG,QAAQ,CAAA;AACtC,CAAC;AAED;IAAiC,uBAAS;IAA1C;;IAoNA,CAAC;IAjNC,4BAAc,GAAd,UAAe,KAAa,EAAE,MAAc;QAC1C,IAAM,SAAS,GAAG,IAAA,mBAAY,EAC5B,cAAI,CAAC,WAAW,CACd,KAAK,CAAC,SAAS,CAAC,KAAK,CAAC,IAAI,CAAC,KAAK,EAAE,MAAM,GAAG,EAAE,EAAE,MAAM,GAAG,EAAE,CAAC,EAC3D,IAAI,CACL,CACF,CAAA;QACD,OAAO,EAAE,SAAS,WAAA,EAAE,CAAA;IACtB,CAAC;IAEK,uBAAS,GAAf,UAAgB,KAAa,EAAE,IAAmB;QAAnB,qBAAA,EAAA,SAAmB;;;;;4BACnC,qBAAM,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,EAAA;;wBAA7B,IAAI,GAAG,SAAsB;wBAC7B,KAAK,GAAG,IAAI,CAAC,OAAO,CAAC,KAAK,CAAC,CAAA;wBACjC,IAAI,CAAC,KAAK,EAAE;4BACV,sBAAO,CAAC,CAAC,EAAA;yBACV;wBACK,GAAG,GAAG,KAAK,CAAC,KAAK,IAAI,EAAE,CAAA;wBAC7B,sBAAO,GAAG,CAAC,SAAS,KAAK,SAAS,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,SAAS,EAAA;;;;KACxD;IAED,sBAAQ,GAAR,UAAS,IAAmB;QAA5B,iBAQC;QARQ,qBAAA,EAAA,SAAmB;QAC1B,IAAI,CAAC,IAAI,CAAC,IAAI,EAAE;YACd,IAAI,CAAC,IAAI,GAAG,IAAI,CAAC,UAAU,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,KAAK,CAAC,UAAA,CAAC;gBAChD,KAAI,CAAC,IAAI,GAAG,SAAS,CAAA;gBACrB,MAAM,CAAC,CAAA;YACT,CAAC,CAAoB,CAAA;SACtB;QACD,OAAO,IAAI,CAAC,IAAI,CAAA;IAClB,CAAC;IAED,4BAA4B;IACtB,oBAAM,GAAZ,UAAa,IAAmB;QAAnB,qBAAA,EAAA,SAAmB;;;;;;wBACxB,IAAI,GAA2B,EAAE,GAAG,EAAE,IAAI,EAAE,YAAY,EAAE,CAAC,IAAI,EAAE,EAAE,CAAA;wBAC3D,qBAAM,IAAI,CAAC,QAAQ,EAAE;4BAEnC,0BAA0B;0BAFS;;wBAA7B,KAAK,GAAG,SAAqB;wBAEnC,0BAA0B;wBAC1B,IAAI,KAAK,CAAC,YAAY,CAAC,CAAC,CAAC,KAAK,SAAS,EAAE;4BACvC,MAAM,IAAI,KAAK,CAAC,gBAAgB,CAAC,CAAA;yBAClC;wBAED,IAAI,CAAC,QAAQ,GAAG,KAAK,CAAC,WAAW,CAAC,CAAC,CAAC,CAAA;wBAC9B,KAAK,GAAG,CAAC,CAAA;wBACT,QAAQ,GAAG,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,KAAK,GAAG,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,CAAC,CAAA;wBAEnD,+CAA+C;wBAC/C,IAAI,CAAC,OAAO,GAAG,IAAI,KAAK,CAAC,IAAI,CAAC,QAAQ,CAAC,CAAA;wBACnC,UAAU,GAAG,CAAC,CAAA;wBACT,CAAC,GAAG,CAAC;;;6BAAE,CAAA,CAAC,GAAG,IAAI,CAAC,QAAQ,CAAA;wBAC/B,qBAAM,IAAA,sBAAe,EAAC,IAAI,CAAC,MAAM,CAAC;4BAElC,oBAAoB;0BAFc;;wBAAlC,SAAkC,CAAA;wBAG5B,QAAQ,GAAG,KAAK,CAAC,WAAW,CAAC,UAAU,CAAC,CAAA;wBAC1C,KAAK,SAAA,CAAA;wBAET,UAAU,IAAI,CAAC,CAAA;wBACT,QAAQ,GAA+B,EAAE,CAAA;wBAC/C,KAAS,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,QAAQ,EAAE,CAAC,IAAI,CAAC,EAAE;4BAC9B,GAAG,GAAG,KAAK,CAAC,YAAY,CAAC,UAAU,CAAC,CAAA;4BAC1C,UAAU,IAAI,CAAC,CAAA;4BACf,IAAI,GAAG,KAAK,QAAQ,GAAG,CAAC,EAAE;gCACxB,UAAU,IAAI,CAAC,CAAA;gCACf,KAAK,GAAG,IAAI,CAAC,cAAc,CAAC,KAAK,EAAE,UAAU,CAAC,CAAA;gCAC9C,UAAU,IAAI,EAAE,CAAA;6BACjB;iCAAM,IAAI,GAAG,GAAG,QAAQ,GAAG,CAAC,EAAE;gCAC7B,MAAM,IAAI,KAAK,CAAC,kDAAkD,CAAC,CAAA;6BACpE;iCAAM;gCACC,UAAU,GAAG,KAAK,CAAC,WAAW,CAAC,UAAU,CAAC,CAAA;gCAChD,UAAU,IAAI,CAAC,CAAA;gCACT,MAAM,GAAG,IAAI,KAAK,CAAC,UAAU,CAAC,CAAA;gCACpC,KAAS,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,UAAU,EAAE,CAAC,IAAI,CAAC,EAAE;oCAChC,CAAC,GAAG,IAAA,yBAAS,EAAC,KAAK,EAAE,UAAU,CAAC,CAAA;oCAChC,CAAC,GAAG,IAAA,yBAAS,EAAC,KAAK,EAAE,UAAU,GAAG,CAAC,CAAC,CAAA;oCAC1C,UAAU,IAAI,EAAE,CAAA;oCAChB,IAAI,CAAC,cAAc,CAAC,IAAI,EAAE,CAAC,CAAC,CAAA;oCAC5B,MAAM,CAAC,CAAC,CAAC,GAAG,IAAI,eAAK,CAAC,CAAC,EAAE,CAAC,EAAE,GAAG,CAAC,CAAA;iCACjC;gCACD,QAAQ,CAAC,GAAG,CAAC,GAAG,MAAM,CAAA;6BACvB;yBACF;wBAEK,WAAW,GAAG,KAAK,CAAC,WAAW,CAAC,UAAU,CAAC,CAAA;wBACjD,UAAU,IAAI,CAAC,CAAA;wBAIT,WAAW,GAAG,IAAI,KAAK,CAAC,WAAW,CAAC,CAAA;wBAC1C,KAAS,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,WAAW,EAAE,CAAC,IAAI,CAAC,EAAE;4BACvC,WAAW,CAAC,CAAC,CAAC,GAAG,IAAA,yBAAS,EAAC,KAAK,EAAE,UAAU,CAAC,CAAA;4BAC7C,UAAU,IAAI,CAAC,CAAA;4BACf,IAAI,CAAC,cAAc,CAAC,IAAI,EAAE,WAAW,CAAC,CAAC,CAAC,CAAC,CAAA;yBAC1C;wBAED,IAAI,CAAC,OAAO,CAAC,CAAC,CAAC,GAAG,EAAE,QAAQ,UAAA,EAAE,WAAW,aAAA,EAAE,KAAK,OAAA,EAAE,CAAA;;;wBA7CjB,CAAC,IAAI,CAAC,CAAA;;4BAgDzC,sBAAO,IAAI,EAAA;;;;KACZ;IAEK,sBAAQ,GAAd,UACE,KAAa,EACb,KAAc,EACd,GAAY,EACZ,IAAmB;QAAnB,qBAAA,EAAA,SAAmB;;;;;;wBAEb,CAAC,GAAG,KAAK,CAAA;wBACT,KAAK,GAAG,KAAK,KAAK,SAAS,CAAA;wBACf,qBAAM,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,EAAA;;wBAAlC,SAAS,GAAG,SAAsB;wBAClC,MAAM,GAAG,SAAS,CAAC,OAAO,CAAC,KAAK,CAAC,CAAA;wBACvC,IAAI,CAAC,MAAM,EAAE;4BACX,sBAAO,EAAE,EAAA;yBACV;wBACO,KAA4B,MAAM,YAAlB,EAAhB,WAAW,mBAAG,EAAE,KAAA,EAAE,KAAK,GAAK,MAAM,MAAX,CAAW;wBAC1C,IAAI,CAAC,WAAW,CAAC,MAAM,EAAE;4BACvB,sBAAO,EAAE,EAAA;yBACV;wBACK,CAAC,GAAG,GAAG,KAAK,SAAS,CAAC,CAAC,CAAC,OAAO,CAAC,GAAG,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,WAAW,CAAC,MAAM,GAAG,CAAC,CAAC,GAAG,CAAC,CAAA;wBACtE,CAAC,GAAG,KAAK,KAAK,SAAS,CAAC,CAAC,CAAC,SAAS,CAAC,KAAK,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;wBAEvD,IAAI,KAAK,EAAE;4BACT,MAAM,GAAG,IAAI,KAAK,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,CAAC,CAAC,CAAA;yBAChC;6BAAM;4BACL,MAAM,GAAG,IAAI,KAAK,CAAC,WAAW,CAAC,MAAM,GAAG,CAAC,CAAC,CAAA;yBAC3C;wBACK,SAAS,GAAG,WAAW,CAAC,WAAW,CAAC,MAAM,GAAG,CAAC,CAAC,CAAC,aAAa,CAAA;wBACnE,IAAI,CAAC,GAAG,CAAC,WAAW,CAAC,MAAM,GAAG,CAAC,CAAC,GAAG,CAAC,EAAE;4BACpC,MAAM,IAAI,KAAK,CAAC,wCAAwC,CAAC,CAAA;yBAC1D;wBACG,UAAU,GAAG,WAAW,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,aAAa,CAAA;wBACjD,KAAS,CAAC,GAAG,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,CAAC,GAAG,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,EAAE,EAAE;4BAC9C,MAAM,CAAC,CAAC,CAAC,GAAG;gCACV,KAAK,EAAE,WAAW,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,aAAa,GAAG,UAAU;gCACpD,KAAK,EAAE,CAAC,GAAG,CAAC;gCACZ,GAAG,EAAE,CAAC,GAAG,CAAC,GAAG,CAAC;6BACf,CAAA;4BACD,UAAU,GAAG,WAAW,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,aAAa,CAAA;yBAC9C;wBACD,sBAAO,MAAM,CAAC,GAAG,CAAC,UAAA,CAAC;gCACjB,6BAAY,CAAC,KAAE,KAAK,EAAE,CAAC,CAAC,CAAC,KAAK,GAAG,KAAK,CAAC,SAAS,CAAC,GAAG,SAAS,IAAE;4BACjE,CAAC,CAAC,EAAA;;;;KACH;IAED;;;OAGG;IACH,sBAAQ,GAAR,UAAS,GAAW,EAAE,GAAW;QAC/B,GAAG,IAAI,CAAC,CAAA;QACR,OAAO;YACL,CAAC,CAAC,EAAE,CAAC,CAAC;YACN,CAAC,CAAC,GAAG,CAAC,GAAG,IAAI,EAAE,CAAC,EAAE,CAAC,GAAG,CAAC,GAAG,IAAI,EAAE,CAAC,CAAC;YAClC,CAAC,CAAC,GAAG,CAAC,GAAG,IAAI,EAAE,CAAC,EAAE,CAAC,GAAG,CAAC,GAAG,IAAI,EAAE,CAAC,CAAC;YAClC,CAAC,EAAE,GAAG,CAAC,GAAG,IAAI,EAAE,CAAC,EAAE,EAAE,GAAG,CAAC,GAAG,IAAI,EAAE,CAAC,CAAC;YACpC,CAAC,GAAG,GAAG,CAAC,GAAG,IAAI,EAAE,CAAC,EAAE,GAAG,GAAG,CAAC,GAAG,IAAI,EAAE,CAAC,CAAC;YACtC,CAAC,IAAI,GAAG,CAAC,GAAG,IAAI,EAAE,CAAC,EAAE,IAAI,GAAG,CAAC,GAAG,IAAI,EAAE,CAAC,CAAC;SACzC,CAAA;IACH,CAAC;IAEK,4BAAc,GAApB,UACE,KAAa,EACb,GAAW,EACX,GAAW,EACX,IAAmB;QAAnB,qBAAA,EAAA,SAAmB;;;;;;wBAEnB,IAAI,GAAG,GAAG,CAAC,EAAE;4BACX,GAAG,GAAG,CAAC,CAAA;yBACR;wBAEiB,qBAAM,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,EAAA;;wBAAlC,SAAS,GAAG,SAAsB;wBACxC,IAAI,CAAC,SAAS,EAAE;4BACd,sBAAO,EAAE,EAAA;yBACV;wBACK,EAAE,GAAG,SAAS,CAAC,OAAO,CAAC,KAAK,CAAC,CAAA;wBACnC,IAAI,CAAC,EAAE,EAAE;4BACP,sBAAO,EAAE,EAAA;yBACV;wBAGK,eAAe,GAAG,IAAI,CAAC,QAAQ,CAAC,GAAG,EAAE,GAAG,CAAC,CAAA;wBACzC,MAAM,GAAY,EAAE,CAAA;wBAE1B,sEAAsE;wBACtE,WAA0C,EAAf,mCAAe,EAAf,6BAAe,EAAf,IAAe,EAAE;4BAAjC,0BAAY,EAAX,KAAK,QAAA,EAAE,GAAG,QAAA;4BACpB,KAAS,GAAG,GAAG,KAAK,EAAE,GAAG,IAAI,GAAG,EAAE,GAAG,EAAE,EAAE;gCACvC,IAAI,EAAE,CAAC,QAAQ,CAAC,GAAG,CAAC,EAAE;oCACd,SAAS,GAAG,EAAE,CAAC,QAAQ,CAAC,GAAG,CAAC,CAAA;oCAClC,KAAS,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,SAAS,CAAC,MAAM,EAAE,EAAE,CAAC,EAAE;wCACzC,MAAM,CAAC,IAAI,CAAC,IAAI,eAAK,CAAC,SAAS,CAAC,CAAC,CAAC,CAAC,IAAI,EAAE,SAAS,CAAC,CAAC,CAAC,CAAC,IAAI,EAAE,GAAG,CAAC,CAAC,CAAA;qCAClE;iCACF;6BACF;yBACF;wBAIK,KAAK,GAAG,EAAE,CAAC,WAAW,CAAC,MAAM,CAAA;wBAC/B,MAAM,GAAG,IAAI,CAAA;wBACX,MAAM,GAAG,IAAI,CAAC,GAAG,CAAC,GAAG,IAAI,EAAE,EAAE,KAAK,GAAG,CAAC,CAAC,CAAA;wBACvC,MAAM,GAAG,IAAI,CAAC,GAAG,CAAC,GAAG,IAAI,EAAE,EAAE,KAAK,GAAG,CAAC,CAAC,CAAA;wBAC7C,KAAS,CAAC,GAAG,MAAM,EAAE,CAAC,IAAI,MAAM,EAAE,EAAE,CAAC,EAAE;4BAC/B,EAAE,GAAG,EAAE,CAAC,WAAW,CAAC,CAAC,CAAC,CAAA;4BAC5B,IAAI,EAAE,EAAE;gCACN,IAAI,CAAC,MAAM,IAAI,EAAE,CAAC,SAAS,CAAC,MAAM,CAAC,GAAG,CAAC,EAAE;oCACvC,MAAM,GAAG,EAAE,CAAA;iCACZ;6BACF;yBACF;wBAED,sBAAO,IAAA,qBAAc,EAAC,MAAM,EAAE,MAAM,CAAC,EAAA;;;;KACtC;IACH,UAAC;AAAD,CAAC,AApND,CAAiC,mBAAS,GAoNzC"}
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package/dist/bamFile.d.ts
CHANGED
package/dist/bamFile.js
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});
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});
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};
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BamFile.prototype.blocksForRange = function (seqName, start, end, opts) {
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return __awaiter(this, void 0, void 0, function () {
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var seqId;
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return __generator(this, function (_a) {
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switch (_a.label) {
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case 0: return [4 /*yield*/, this.index.parse()];
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case 1:
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_a.sent();
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seqId = this.chrToIndex && this.chrToIndex[seqName];
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return [2 /*return*/, this.index.blocksForRange(seqId, start, end, opts)];
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}
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});
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});
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};
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return BamFile;
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}());
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exports.default = BamFile;
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package/dist/bamFile.js.map
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1
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|
package/dist/indexFile.d.ts
CHANGED
|
@@ -21,7 +21,7 @@ export default abstract class IndexFile {
|
|
|
21
21
|
end: number;
|
|
22
22
|
score: number;
|
|
23
23
|
}[]>;
|
|
24
|
-
abstract blocksForRange(chrId: number, start: number, end: number, opts
|
|
24
|
+
abstract blocksForRange(chrId: number, start: number, end: number, opts?: BaseOpts): Promise<Chunk[]>;
|
|
25
25
|
_findFirstData(data: any, virtualOffset: VirtualOffset): void;
|
|
26
26
|
parse(opts?: BaseOpts): Promise<any>;
|
|
27
27
|
hasRefSeq(seqId: number, opts?: BaseOpts): Promise<boolean>;
|
package/esm/bai.js
CHANGED
|
@@ -159,7 +159,8 @@ export default class BAI extends IndexFile {
|
|
|
159
159
|
if (!ba) {
|
|
160
160
|
return [];
|
|
161
161
|
}
|
|
162
|
-
|
|
162
|
+
// List of bin #s that overlap min, max
|
|
163
|
+
const overlappingBins = this.reg2bins(min, max);
|
|
163
164
|
const chunks = [];
|
|
164
165
|
// Find chunks in overlapping bins. Leaf bins (< 4681) are not pruned
|
|
165
166
|
for (const [start, end] of overlappingBins) {
|
|
@@ -172,7 +173,8 @@ export default class BAI extends IndexFile {
|
|
|
172
173
|
}
|
|
173
174
|
}
|
|
174
175
|
}
|
|
175
|
-
// Use the linear index to find minimum file position of chunks that could
|
|
176
|
+
// Use the linear index to find minimum file position of chunks that could
|
|
177
|
+
// contain alignments in the region
|
|
176
178
|
const nintv = ba.linearIndex.length;
|
|
177
179
|
let lowest = null;
|
|
178
180
|
const minLin = Math.min(min >> 14, nintv - 1);
|
package/esm/bai.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
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|
package/esm/bamFile.d.ts
CHANGED
package/esm/bamFile.js
CHANGED
|
@@ -379,5 +379,10 @@ export default class BamFile {
|
|
|
379
379
|
const seqId = this.chrToIndex && this.chrToIndex[seqName];
|
|
380
380
|
return this.index.indexCov(seqId, start, end);
|
|
381
381
|
}
|
|
382
|
+
async blocksForRange(seqName, start, end, opts) {
|
|
383
|
+
await this.index.parse();
|
|
384
|
+
const seqId = this.chrToIndex && this.chrToIndex[seqName];
|
|
385
|
+
return this.index.blocksForRange(seqId, start, end, opts);
|
|
386
|
+
}
|
|
382
387
|
}
|
|
383
388
|
//# sourceMappingURL=bamFile.js.map
|
package/esm/bamFile.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
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1
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+
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package/esm/indexFile.d.ts
CHANGED
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@@ -21,7 +21,7 @@ export default abstract class IndexFile {
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|
|
21
21
|
end: number;
|
|
22
22
|
score: number;
|
|
23
23
|
}[]>;
|
|
24
|
-
abstract blocksForRange(chrId: number, start: number, end: number, opts
|
|
24
|
+
abstract blocksForRange(chrId: number, start: number, end: number, opts?: BaseOpts): Promise<Chunk[]>;
|
|
25
25
|
_findFirstData(data: any, virtualOffset: VirtualOffset): void;
|
|
26
26
|
parse(opts?: BaseOpts): Promise<any>;
|
|
27
27
|
hasRefSeq(seqId: number, opts?: BaseOpts): Promise<boolean>;
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